Reconstruction of dynamic forces during impact tests of a crushable structure
Bateman, V.I.; Carne, T.G.; Mayes, R.L.; Davie, N.T.
1993-12-31
A force reconstruction technique is being used to assess the dynamic performance of a crushable structure (a bomb nose) in both the axial (90{degree}) and slapdown (30{degree}) impact conditions. The dynamic force characteristics for the current nose design, determined from these tests, will be used to write a dynamic force specification for a new nose design that will replace the current nose. Two structures for experimentally determining the dynamic force -- deflection characteristics of the old and new noses have been designed and constructed. One structure has the same dynamic characteristics as the bomb and is being used for axial and slapdown orientations with rocket-propelled testing. The second structure has the same mass as the bomb and is being used for iterative axial testing of candidate designs with a pneumatic ram. The structural characteristics of these two structures have been determined and are presented. A force reconstruction algorithm using the Sum of Weighted Accelerations Technique (SWAT) has been developed for each of the two structures. The force reconstruction algorithms have been verified for both structures using laboratory data. The force reconstruction process and the resulting algorithms are described. Data verifying the force reconstruction algorithms is presented.
An ab initio approach to free-energy reconstruction using logarithmic mean force dynamics
Nakamura, Makoto Obata, Masao; Morishita, Tetsuya; Oda, Tatsuki
2014-05-14
We present an ab initio approach for evaluating a free energy profile along a reaction coordinate by combining logarithmic mean force dynamics (LogMFD) and first-principles molecular dynamics. The mean force, which is the derivative of the free energy with respect to the reaction coordinate, is estimated using density functional theory (DFT) in the present approach, which is expected to provide an accurate free energy profile along the reaction coordinate. We apply this new method, first-principles LogMFD (FP-LogMFD), to a glycine dipeptide molecule and reconstruct one- and two-dimensional free energy profiles in the framework of DFT. The resultant free energy profile is compared with that obtained by the thermodynamic integration method and by the previous LogMFD calculation using an empirical force-field, showing that FP-LogMFD is a promising method to calculate free energy without empirical force-fields.
An ab initio approach to free-energy reconstruction using logarithmic mean force dynamics
NASA Astrophysics Data System (ADS)
Nakamura, Makoto; Obata, Masao; Morishita, Tetsuya; Oda, Tatsuki
2014-05-01
We present an ab initio approach for evaluating a free energy profile along a reaction coordinate by combining logarithmic mean force dynamics (LogMFD) and first-principles molecular dynamics. The mean force, which is the derivative of the free energy with respect to the reaction coordinate, is estimated using density functional theory (DFT) in the present approach, which is expected to provide an accurate free energy profile along the reaction coordinate. We apply this new method, first-principles LogMFD (FP-LogMFD), to a glycine dipeptide molecule and reconstruct one- and two-dimensional free energy profiles in the framework of DFT. The resultant free energy profile is compared with that obtained by the thermodynamic integration method and by the previous LogMFD calculation using an empirical force-field, showing that FP-LogMFD is a promising method to calculate free energy without empirical force-fields.
An ab initio approach to free-energy reconstruction using logarithmic mean force dynamics.
Nakamura, Makoto; Obata, Masao; Morishita, Tetsuya; Oda, Tatsuki
2014-05-14
We present an ab initio approach for evaluating a free energy profile along a reaction coordinate by combining logarithmic mean force dynamics (LogMFD) and first-principles molecular dynamics. The mean force, which is the derivative of the free energy with respect to the reaction coordinate, is estimated using density functional theory (DFT) in the present approach, which is expected to provide an accurate free energy profile along the reaction coordinate. We apply this new method, first-principles LogMFD (FP-LogMFD), to a glycine dipeptide molecule and reconstruct one- and two-dimensional free energy profiles in the framework of DFT. The resultant free energy profile is compared with that obtained by the thermodynamic integration method and by the previous LogMFD calculation using an empirical force-field, showing that FP-LogMFD is a promising method to calculate free energy without empirical force-fields.
Dynamic Reconstruction and Multivariable Control for Force-Actuated, Thin Facesheet Adaptive Optics
NASA Technical Reports Server (NTRS)
Grocott, Simon C. O.; Miller, David W.
1997-01-01
The Multiple Mirror Telescope (MMT) under development at the University of Arizona takes a new approach in adaptive optics placing a large (0.65 m) force-actuated, thin facesheet deformable mirror at the secondary of an astronomical telescope, thus reducing the effects of emissivity which are important in IR astronomy. However, The large size of the mirror and low stiffness actuators used drive the natural frequencies of the mirror down into the bandwidth of the atmospheric distortion. Conventional adaptive optics takes a quasi-static approach to controlling the, deformable mirror. However, flexibility within the control bandwidth calls for a new approach to adaptive optics. Dynamic influence functions are used to characterize the influence of each actuator on the surface of the deformable mirror. A linearized model of atmospheric distortion is combined with dynamic influence functions to produce a dynamic reconstructor. This dynamic reconstructor is recognized as an optimal control problem. Solving the optimal control problem for a system with hundreds of actuators and sensors is formidable. Exploiting the circularly symmetric geometry of the mirror, and a suitable model of atmospheric distortion, the control problem is divided into a number of smaller decoupled control problems using circulant matrix theory. A hierarchic control scheme which seeks to emulate the quasi-static control approach that is generally used in adaptive optics is compared to the proposed dynamic reconstruction technique. Although dynamic reconstruction requires somewhat more computational power to implement, it achieves better performance with less power usage, and is less sensitive than the hierarchic technique.
Valero-Cuevas, Francisco J.
2017-01-01
The Strength-Dexterity (SD) test measures the ability of the pulps of the thumb and index finger to compress a compliant and slender spring prone to buckling at low forces (<3N). We know that factors such as aging and neurodegenerative conditions bring deteriorating physiological changes (e.g., at the level of motor cortex, cerebellum, and basal ganglia), which lead to an overall loss of dexterous ability. However, little is known about how these changes reflect upon the dynamics of the underlying biological system. The spring-hand system exhibits nonlinear dynamical behavior and here we characterize the dynamical behavior of the phase portraits using attractor reconstruction. Thirty participants performed the SD test: 10 young adults, 10 older adults, and 10 older adults with Parkinson’s disease (PD). We used delayed embedding of the applied force to reconstruct its attractor. We characterized the distribution of points of the phase portraits by their density (number of distant points and interquartile range) and geometric features (trajectory length and size). We find phase portraits from older adults exhibit more distant points (p = 0.028) than young adults and participants with PD have larger interquartile ranges (p = 0.001), trajectory lengths (p = 0.005), and size (p = 0.003) than their healthy counterparts. The increased size of the phase portraits with healthy aging suggests a change in the dynamical properties of the system, which may represent a weakening of the neural control strategy. In contrast, the distortion of the attractor in PD suggests a fundamental change in the underlying biological system, and disruption of the neural control strategy. This ability to detect differences in the biological mechanisms of dexterity in healthy and pathological aging provides a simple means to assess their disruption in neurodegenerative conditions and justifies further studies to understand the link with the physiological changes. PMID:28192482
Dynamic reconstruction and multivariable control for force-actuated, thin facesheet adaptive optics
NASA Astrophysics Data System (ADS)
Grocott, Simon C. O.
1997-10-01
The Multiple Mirror Telescope (MMT) under development at the University of Arizona takes a new approach in adaptive optics placing a large (0.65 m) force-actuated, thin facesheet deformable mirror at the secondary of an astronomical telescope, thus reducing the effects of emissivity which are important in IR astronomy. However, the large size of the mirror and low stiffness actuators used drive the natural frequencies of the mirror down into the bandwidth of the atmospheric distortion. Conventional adaptive optics takes a quasi-static approach to controlling the deformable mirror. However, flexibility within the control bandwidth calls for a new approach to adaptive optics. Dynamic influence functions are used to characterize the influence of each actuator on the surface of the deformable mirror. A linearized model of atmospheric distortion is combined with dynamic influence functions to produce a dynamic reconstructor. This dynamic reconstructor is recognized as an optimal control problem. Solving the optimal control problem for a system with hundreds of actuators and sensors is formidable. Exploiting the circularly symmetric geometry of the mirror, and a suitable model of atmospheric distortion, the control problem is divided into a number of smaller decoupled control problems using circulant matrix theory. A hierarchic control scheme which seeks to emulate the quasi-static control approach that is generally used in adaptive optics is compared to the proposed dynamic reconstruction technique. Although dynamic reconstruction requires somewhat more computational power to implement, it achieves better performance with less power usage, and is less sensitive than the hierarchic technique. (Copies available exclusively from MIT Libraries, Rm. 14-0551, Cambridge, MA 02139-4307. Ph. 617-253-5668; Fax 617-253- 1690).
Rolling Contact Force Energy Reconstruction
NASA Astrophysics Data System (ADS)
BRACCIALI, A.; CASCINI, G.
2000-09-01
Knowledge of the forces at the wheel-rail contact is fundamental to estimate the consequences in terms of noise and vibration. The traditional use of strain gauges mounted on the wheel web and axle is not capable of determining the high-frequency content of the contact force. Measurements made on the rail are characterized by the spatial variability of input-output transfer functions which makes it difficult to estimate the contact force by simple inversion of the point frequency response function. In this study the problem of rolling contact force reconstruction has been approached through the following steps: (i) the track has been characterized precisely for a finite length by the analysis of the time series of several impacts supplied with an instrumented hammer by using an ARMAX model that proved to be capable of modelling the vertical dynamics of the rail up to 5 kHz; (ii) the response of the rail has been simulated with a random force acting on the system, and the variability of the transfer function has been taken into account by distributing the force on adjacent elements; (iii) the simulated response has been compared with the rail acceleration measured for the passage of several trains; (iv) the wheel-rail contact force has been estimated with a closed-loop algorithm. It has thus been possible to reconstruct the13octave power spectrum of contact forces with a simple and stable iterative procedure. Forces reconstructed from different sensors were found to be practically the same for a given wheel; forces from nominally similar wheels are statistically examined and partial results of comparisons made on different rolling stock are shown.
Reconstructing the distributed force on an atomic force microscope cantilever.
Wagner, Ryan; Killgore, Jason
2017-03-10
A methodology is developed to reconstruct the force applied to an atomic force microscopy (AFM) cantilever given the shape in which it vibrates. This is accomplished by rewriting Bernoulli-Euler beam theory such that the force on the cantilever is approximated as a linear superposition of the theoretical cantilever eigenmodes. The weighting factors in this summation are calculated from the amplitude and phase measured along the length of the cantilever. The accuracy of the force reconstruction is shown to depend on the frequency at which the measurement is performed, the number of discrete points measured along the length of the cantilever, and the signal-to-noise ratio of the measured signal. In contrast to other AFM force reconstruction techniques, this method can reconstruct the distribution of force applied over the length of the AFM cantilever. However, this method performs poorly for localized forces applied to the cantilever, such as is typical of most tip-sample interaction forces. Proof of concept experiments are performed on an electrostatically excited cantilever and the expected force distribution is recovered. This force reconstruction technique offers previously unavailable insight into the distributed forces experienced by an AFM cantilever.
Reconstructing the distributed force on an atomic force microscope cantilever
NASA Astrophysics Data System (ADS)
Wagner, Ryan; Killgore, Jason
2017-03-01
A methodology is developed to reconstruct the force applied to an atomic force microscopy (AFM) cantilever given the shape in which it vibrates. This is accomplished by rewriting Bernoulli–Euler beam theory such that the force on the cantilever is approximated as a linear superposition of the theoretical cantilever eigenmodes. The weighting factors in this summation are calculated from the amplitude and phase measured along the length of the cantilever. The accuracy of the force reconstruction is shown to depend on the frequency at which the measurement is performed, the number of discrete points measured along the length of the cantilever, and the signal-to-noise ratio of the measured signal. In contrast to other AFM force reconstruction techniques, this method can reconstruct the distribution of force applied over the length of the AFM cantilever. However, this method performs poorly for localized forces applied to the cantilever, such as is typical of most tip–sample interaction forces. Proof of concept experiments are performed on an electrostatically excited cantilever and the expected force distribution is recovered. This force reconstruction technique offers previously unavailable insight into the distributed forces experienced by an AFM cantilever.
Reconstructing Volcanic Forcing of Climate: Past, Present and Future
NASA Astrophysics Data System (ADS)
Toohey, M.; Timmreck, C.; Sigl, M.
2015-12-01
Radiative forcing resulting from major volcanic eruptions has been a dominant driver of climate variability during Earth's history. Including volcanic forcing in climate model simulations is therefore essential to recreate past climate variability, and provides the opportunity to test the ability of models to respond accurately to external forcing. Ice cores provide estimates of the volcanic sulfate loadings from past eruptions, from which radiative forcing can be reconstructed, with associated uncertainties. Using prior reconstructions, climate models have reproduced the gross features of global mean temperature variability reconstructed from climate proxies, although some significant differences between model results and reconstructions remain. There is much less confidence in the accuracy of the dynamical responses to volcanic forcing produced by climate models, and thus the regional aspects of post-volcanic climate anomalies are much more uncertain—a result which mirrors uncertainties in the dynamical responses to future climate change. Improvements in model's response to volcanic forcing may be possible through improving the accuracy of the forcing data. Recent advances on multiple fronts have motivated the development of a next-generation volcanic forcing timeseries for use in climate models, based on (1) improved dating and precision of ice core records, (2) better understanding of the atmospheric transport and microphysical evolution of volcanic aerosol, including its size distribution, and (3) improved representations of the spatiotemporal structure of volcanic radiative forcing. A new volcanic forcing data set, covering the past 2500 years, will be introduced and compared with prior reconstructions. Preliminary results of climate model simulations using the new forcing will also be shown, and current and future applications of the forcing set discussed.
Olive, Marie-Marie; Grosbois, Vladimir; Tran, Annelise; Nomenjanahary, Lalaina Arivony; Rakotoarinoro, Mihaja; Andriamandimby, Soa-Fy; Rogier, Christophe; Heraud, Jean-Michel; Chevalier, Veronique
2017-01-01
The force of infection (FOI) is one of the key parameters describing the dynamics of transmission of vector-borne diseases. Following the occurrence of two major outbreaks of Rift Valley fever (RVF) in Madagascar in 1990–91 and 2008–09, recent studies suggest that the pattern of RVF virus (RVFV) transmission differed among the four main eco-regions (East, Highlands, North-West and South-West). Using Bayesian hierarchical models fitted to serological data from cattle of known age collected during two surveys (2008 and 2014), we estimated RVF FOI and described its variations over time and space in Madagascar. We show that the patterns of RVFV transmission strongly differed among the eco-regions. In the North-West and Highlands regions, these patterns were synchronous with a high intensity in mid-2007/mid-2008. In the East and South-West, the peaks of transmission were later, between mid-2008 and mid-2010. In the warm and humid northwestern eco-region favorable to mosquito populations, RVFV is probably transmitted all year-long at low-level during inter-epizootic period allowing its maintenance and being regularly introduced in the Highlands through ruminant trade. The RVF surveillance of animals of the northwestern region could be used as an early warning indicator of an increased risk of RVF outbreak in Madagascar. PMID:28051125
NASA Astrophysics Data System (ADS)
Cassou, Christophe; Minvielle, Marie; Terray, Laurent; Périgaud, Claire
2011-01-01
findings are encouraging for the prospects of basin-scale ocean dynamical downscaling using a weather-typing approach to reconstruct forcing fields for high resolution ocean models (Part II) from coarse resolution climate models.
Reconstructing Weighted Networks from Dynamics
NASA Astrophysics Data System (ADS)
Ching, Emily S. C.; Lai, P. Y.; Leung, C. Y.
2015-03-01
The knowledge of how the different nodes of a network interact or link with one another is crucial for the understanding of the collective behavior and the functionality of the network. We have recently developed a method that can reconstruct both the links and their relative coupling strength of bidirectional weighted networks. Our method requires only measurements of node dynamics as input and is based on a relation between the pseudo-inverse of the matrix of the correlation of the node dynamics and the Laplacian matrix of the weighted network. Using several examples of different dynamics, we demonstrate that our method can accurately reconstruct the connectivity as well as the weights of the links for weighted random and weighted scale-free networks with both linear and nonlinear dynamics. The work of ESCC and CYL has been supported by the Hong Kong Research Grants Council under Grant No. CUHK 14300914.
Force reconstruction from tapping mode force microscopy experiments
NASA Astrophysics Data System (ADS)
Payam, Amir F.; Martin-Jimenez, Daniel; Garcia, Ricardo
2015-05-01
Fast, accurate, and robust nanomechanical measurements are intensely studied in materials science, applied physics, and molecular biology. Amplitude modulation force microscopy (tapping mode) is the most established nanoscale characterization technique of surfaces for air and liquid environments. However, its quantitative capabilities lag behind its high spatial resolution and robustness. We develop a general method to transform the observables into quantitative force measurements. The force reconstruction algorithm has been deduced on the assumption that the observables (amplitude and phase shift) are slowly varying functions of the tip-surface separation. The accuracy and applicability of the method is validated by numerical simulations and experiments. The method is valid for liquid and air environments, small and large free amplitudes, compliant and rigid materials, and conservative and non-conservative forces.
A multiplicative regularization for force reconstruction
NASA Astrophysics Data System (ADS)
Aucejo, M.; De Smet, O.
2017-02-01
Additive regularizations, such as Tikhonov-like approaches, are certainly the most popular methods for reconstructing forces acting on a structure. These approaches require, however, the knowledge of a regularization parameter, that can be numerically computed using specific procedures. Unfortunately, these procedures are generally computationally intensive. For this particular reason, it could be of primary interest to propose a method able to proceed without defining any regularization parameter beforehand. In this paper, a multiplicative regularization is introduced for this purpose. By construction, the regularized solution has to be calculated in an iterative manner. In doing so, the amount of regularization is automatically adjusted throughout the resolution process. Validations using synthetic and experimental data highlight the ability of the proposed approach in providing consistent reconstructions.
Force reconstruction using the inverse of the mode-shape matrix
Carne, T.G.; Bateman, V.I.; Dohrman, C.R.
1991-01-01
Force reconstruction is a process in which response signals from a dynamic event are used to infer what the applied force must have been to produce these responses. Force reconstruction is of interest when the input force cannot be directly measured, while the response signals are easily obtained using transducers such as accelerometers or strain gages. In many evaluation tests of a structure, the dynamic response is not sufficient information; one may really need a description of the input force. A new technique for force reconstruction is developed. To estimate the externally applied force, this technique sums the weight-scaled acceleration signals, and is referred to as the Sum of Weighted Accelerations Technique (SWAT). To obtain the scalar weights the inverse of the mode shape matrix is used. Application of this technique is illustrated with both numerical calculations using a mass-spring model and experimental data from a structure impacting a rigid barrier. 16 refs., 13 figs.
ERIC Educational Resources Information Center
Geddes, John B.; Black, Kelly
2008-01-01
We examine an experimental apparatus that is used to motivate the connections between the basic properties of vectors, potential functions, systems of nonlinear equations, and Newton's method for nonlinear systems of equations. The apparatus is an adaptation of a force table where we remove the center-pin and allow the center-ring to move freely.…
Dynamic properties of force fields
NASA Astrophysics Data System (ADS)
Vitalini, F.; Mey, A. S. J. S.; Noé, F.; Keller, B. G.
2015-02-01
Molecular-dynamics simulations are increasingly used to study dynamic properties of biological systems. With this development, the ability of force fields to successfully predict relaxation timescales and the associated conformational exchange processes moves into focus. We assess to what extent the dynamic properties of model peptides (Ac-A-NHMe, Ac-V-NHMe, AVAVA, A10) differ when simulated with different force fields (AMBER ff99SB-ILDN, AMBER ff03, OPLS-AA/L, CHARMM27, and GROMOS43a1). The dynamic properties are extracted using Markov state models. For single-residue models (Ac-A-NHMe, Ac-V-NHMe), the slow conformational exchange processes are similar in all force fields, but the associated relaxation timescales differ by up to an order of magnitude. For the peptide systems, not only the relaxation timescales, but also the conformational exchange processes differ considerably across force fields. This finding calls the significance of dynamic interpretations of molecular-dynamics simulations into question.
Reconstruction of piano hammer force from string velocity.
Chaigne, Antoine
2016-11-01
A method is presented for reconstructing piano hammer forces through appropriate filtering of the measured string velocity. The filter design is based on the analysis of the pulses generated by the hammer blow and propagating along the string. In the five lowest octaves, the hammer force is reconstructed by considering two waves only: the incoming wave from the hammer and its first reflection at the front end. For the higher notes, four- or eight-wave schemes must be considered. The theory is validated on simulated string velocities by comparing imposed and reconstructed forces. The simulations are based on a nonlinear damped stiff string model previously developed by Chabassier, Chaigne, and Joly [J. Acoust. Soc. Am. 134(1), 648-665 (2013)]. The influence of absorption, dispersion, and amplitude of the string waves on the quality of the reconstruction is discussed. Finally, the method is applied to real piano strings. The measured string velocity is compared to the simulated velocity excited by the reconstructed force, showing a high degree of accuracy. A number of simulations are compared to simulated strings excited by a force derived from measurements of mass and acceleration of the hammer head. One application to an historic piano is also presented.
Reconstruction of dynamic gated cardiac SPECT
Jin Mingwu; Yang Yongyi; King, Michael A.
2006-11-15
In this paper we propose an image reconstruction procedure which aims to unify gated single photon emission computed tomography (SPECT) and dynamic SPECT into a single method. We divide the cardiac cycle into a number of gate intervals as in gated SPECT, but treat the tracer distribution for each gate as a time-varying signal. By using both dynamic and motion-compensated temporal regularization, our reconstruction procedure will produce an image sequence that shows both cardiac motion and time-varying tracer distribution simultaneously. To demonstrate the proposed reconstruction method, we simulated gated cardiac perfusion imaging using the gated mathematical cardiac-torso (gMCAT) phantom with Tc99m-Teboroxime as the imaging agent. Our results show that the proposed method can produce more accurate reconstruction of gated dynamic images than independent reconstruction of individual gate frames with spatial smoothness alone. In particular, our results show that the former could improve the contrast to noise ratio of a simulated perfusion defect by as much as 100% when compared to the latter.
Remote Dynamic Three-Dimensional Scene Reconstruction
Yang, You; Liu, Qiong; Ji, Rongrong; Gao, Yue
2013-01-01
Remote dynamic three-dimensional (3D) scene reconstruction renders the motion structure of a 3D scene remotely by means of both the color video and the corresponding depth maps. It has shown a great potential for telepresence applications like remote monitoring and remote medical imaging. Under this circumstance, video-rate and high resolution are two crucial characteristics for building a good depth map, which however mutually contradict during the depth sensor capturing. Therefore, recent works prefer to only transmit the high-resolution color video to the terminal side, and subsequently the scene depth is reconstructed by estimating the motion vectors from the video, typically using the propagation based methods towards a video-rate depth reconstruction. However, in most of the remote transmission systems, only the compressed color video stream is available. As a result, color video restored from the streams has quality losses, and thus the extracted motion vectors are inaccurate for depth reconstruction. In this paper, we propose a precise and robust scheme for dynamic 3D scene reconstruction by using the compressed color video stream and their inaccurate motion vectors. Our method rectifies the inaccurate motion vectors by analyzing and compensating their quality losses, motion vector absence in spatial prediction, and dislocation in near-boundary region. This rectification ensures the depth maps can be compensated in both video-rate and high resolution at the terminal side towards reducing the system consumption on both the compression and transmission. Our experiments validate that the proposed scheme is robust for depth map and dynamic scene reconstruction on long propagation distance, even with high compression ratio, outperforming the benchmark approaches with at least 3.3950 dB quality gains for remote applications. PMID:23667417
Image reconstruction with acoustic radiation force induced shear waves
NASA Astrophysics Data System (ADS)
McAleavey, Stephen A.; Nightingale, Kathryn R.; Stutz, Deborah L.; Hsu, Stephen J.; Trahey, Gregg E.
2003-05-01
Acoustic radiation force may be used to induce localized displacements within tissue. This phenomenon is used in Acoustic Radiation Force Impulse Imaging (ARFI), where short bursts of ultrasound deliver an impulsive force to a small region. The application of this transient force launches shear waves which propagate normally to the ultrasound beam axis. Measurements of the displacements induced by the propagating shear wave allow reconstruction of the local shear modulus, by wave tracking and inversion techniques. Here we present in vitro, ex vivo and in vivo measurements and images of shear modulus. Data were obtained with a single transducer, a conventional ultrasound scanner and specialized pulse sequences. Young's modulus values of 4 kPa, 13 kPa and 14 kPa were observed for fat, breast fibroadenoma, and skin. Shear modulus anisotropy in beef muscle was observed.
Fusion of intraoperative force sensoring, surface reconstruction and biomechanical modeling
NASA Astrophysics Data System (ADS)
Röhl, S.; Bodenstedt, S.; Küderle, C.; Suwelack, S.; Kenngott, H.; Müller-Stich, B. P.; Dillmann, R.; Speidel, S.
2012-02-01
Minimally invasive surgery is medically complex and can heavily benefit from computer assistance. One way to help the surgeon is to integrate preoperative planning data into the surgical workflow. This information can be represented as a customized preoperative model of the surgical site. To use it intraoperatively, it has to be updated during the intervention due to the constantly changing environment. Hence, intraoperative sensor data has to be acquired and registered with the preoperative model. Haptic information which could complement the visual sensor data is still not established. In addition, biomechanical modeling of the surgical site can help in reflecting the changes which cannot be captured by intraoperative sensors. We present a setting where a force sensor is integrated into a laparoscopic instrument. In a test scenario using a silicone liver phantom, we register the measured forces with a reconstructed surface model from stereo endoscopic images and a finite element model. The endoscope, the instrument and the liver phantom are tracked with a Polaris optical tracking system. By fusing this information, we can transfer the deformation onto the finite element model. The purpose of this setting is to demonstrate the principles needed and the methods developed for intraoperative sensor data fusion. One emphasis lies on the calibration of the force sensor with the instrument and first experiments with soft tissue. We also present our solution and first results concerning the integration of the force sensor as well as accuracy to the fusion of force measurements, surface reconstruction and biomechanical modeling.
Dynamic Force Measurement with Strain Gauges
ERIC Educational Resources Information Center
Lee, Bruce E.
1974-01-01
Discusses the use of four strain gauges, a Wheatstone bridge, and an oscilloscope to measure forces dynamically. Included is an example of determining the centripetal force of a pendulum in a general physics laboratory. (CC)
Dynamic state allocation for MEG source reconstruction.
Woolrich, Mark W; Baker, Adam; Luckhoo, Henry; Mohseni, Hamid; Barnes, Gareth; Brookes, Matthew; Rezek, Iead
2013-08-15
Our understanding of the dynamics of neuronal activity in the human brain remains limited, due in part to a lack of adequate methods for reconstructing neuronal activity from noninvasive electrophysiological data. Here, we present a novel adaptive time-varying approach to source reconstruction that can be applied to magnetoencephalography (MEG) and electroencephalography (EEG) data. The method is underpinned by a Hidden Markov Model (HMM), which infers the points in time when particular states re-occur in the sensor space data. HMM inference finds short-lived states on the scale of 100ms. Intriguingly, this is on the same timescale as EEG microstates. The resulting state time courses can be used to intelligently pool data over these distinct and short-lived periods in time. This is used to compute time-varying data covariance matrices for use in beamforming, resulting in a source reconstruction approach that can tune its spatial filtering properties to those required at different points in time. Proof of principle is demonstrated with simulated data, and we demonstrate improvements when the method is applied to MEG.
Supersonic Flight Dynamics Test: Trajectory, Atmosphere, and Aerodynamics Reconstruction
NASA Technical Reports Server (NTRS)
Kutty, Prasad; Karlgaard, Christopher D.; Blood, Eric M.; O'Farrell, Clara; Ginn, Jason M.; Shoenenberger, Mark; Dutta, Soumyo
2015-01-01
The Supersonic Flight Dynamics Test is a full-scale flight test of a Supersonic Inflatable Aerodynamic Decelerator, which is part of the Low Density Supersonic Decelerator technology development project. The purpose of the project is to develop and mature aerodynamic decelerator technologies for landing large mass payloads on the surface of Mars. The technologies include a Supersonic Inflatable Aerodynamic Decelerator and Supersonic Parachutes. The first Supersonic Flight Dynamics Test occurred on June 28th, 2014 at the Pacific Missile Range Facility. This test was used to validate the test architecture for future missions. The flight was a success and, in addition, was able to acquire data on the aerodynamic performance of the supersonic inflatable decelerator. This paper describes the instrumentation, analysis techniques, and acquired flight test data utilized to reconstruct the vehicle trajectory, atmosphere, and aerodynamics. The results of the reconstruction show significantly higher lofting of the trajectory, which can partially be explained by off-nominal booster motor performance. The reconstructed vehicle force and moment coefficients fall well within pre-flight predictions. A parameter identification analysis indicates that the vehicle displayed greater aerodynamic static stability than seen in pre-flight computational predictions and ballistic range tests.
Analyzing piezoresponse force microscopy for reconstruction of probed ferroelectric structures
NASA Astrophysics Data System (ADS)
Pan, K.; Liu, Y. Y.; Liu, Y. M.; Li, J. Y.
2012-09-01
Piezoresponse force microscopy (PFM) has emerged as the tool of choice for characterizing piezoelectric and ferroelectric materials at nanoscale, yet the interpretation of PFM remains to be difficult and sometimes ambiguous. Built on earlier works, we developed a numerical integration scheme to analyze the expected PFM response in ferroelectrics with arbitrary domain configurations, with the ultimate goal to accurately reconstruct the underlying ferroelectric structure from PFM measurements. Using such technique, we demonstrated that the relationship between the effective and intrinsic piezoelectric coefficients is sensitive to a variety of factors that are intrinsic to the probed materials, and showed that the PFM mapping is not only influenced by polarization distribution on the sample surface but also three-dimensional polarization distribution inside the material. While relatively simple domain structures were used for demonstration, the approach is general, and can be applied to ferroelectrics with arbitrary polarization distributions.
Reconstructing mammalian sleep dynamics with data assimilation.
Sedigh-Sarvestani, Madineh; Schiff, Steven J; Gluckman, Bruce J
2012-01-01
Data assimilation is a valuable tool in the study of any complex system, where measurements are incomplete, uncertain, or both. It enables the user to take advantage of all available information including experimental measurements and short-term model forecasts of a system. Although data assimilation has been used to study other biological systems, the study of the sleep-wake regulatory network has yet to benefit from this toolset. We present a data assimilation framework based on the unscented Kalman filter (UKF) for combining sparse measurements together with a relatively high-dimensional nonlinear computational model to estimate the state of a model of the sleep-wake regulatory system. We demonstrate with simulation studies that a few noisy variables can be used to accurately reconstruct the remaining hidden variables. We introduce a metric for ranking relative partial observability of computational models, within the UKF framework, that allows us to choose the optimal variables for measurement and also provides a methodology for optimizing framework parameters such as UKF covariance inflation. In addition, we demonstrate a parameter estimation method that allows us to track non-stationary model parameters and accommodate slow dynamics not included in the UKF filter model. Finally, we show that we can even use observed discretized sleep-state, which is not one of the model variables, to reconstruct model state and estimate unknown parameters. Sleep is implicated in many neurological disorders from epilepsy to schizophrenia, but simultaneous observation of the many brain components that regulate this behavior is difficult. We anticipate that this data assimilation framework will enable better understanding of the detailed interactions governing sleep and wake behavior and provide for better, more targeted, therapies.
Reconstructing Mammalian Sleep Dynamics with Data Assimilation
Sedigh-Sarvestani, Madineh; Schiff, Steven J.; Gluckman, Bruce J.
2012-01-01
Data assimilation is a valuable tool in the study of any complex system, where measurements are incomplete, uncertain, or both. It enables the user to take advantage of all available information including experimental measurements and short-term model forecasts of a system. Although data assimilation has been used to study other biological systems, the study of the sleep-wake regulatory network has yet to benefit from this toolset. We present a data assimilation framework based on the unscented Kalman filter (UKF) for combining sparse measurements together with a relatively high-dimensional nonlinear computational model to estimate the state of a model of the sleep-wake regulatory system. We demonstrate with simulation studies that a few noisy variables can be used to accurately reconstruct the remaining hidden variables. We introduce a metric for ranking relative partial observability of computational models, within the UKF framework, that allows us to choose the optimal variables for measurement and also provides a methodology for optimizing framework parameters such as UKF covariance inflation. In addition, we demonstrate a parameter estimation method that allows us to track non-stationary model parameters and accommodate slow dynamics not included in the UKF filter model. Finally, we show that we can even use observed discretized sleep-state, which is not one of the model variables, to reconstruct model state and estimate unknown parameters. Sleep is implicated in many neurological disorders from epilepsy to schizophrenia, but simultaneous observation of the many brain components that regulate this behavior is difficult. We anticipate that this data assimilation framework will enable better understanding of the detailed interactions governing sleep and wake behavior and provide for better, more targeted, therapies. PMID:23209396
Subpiconewton dynamic force spectroscopy using magnetic tweezers.
Kruithof, M; Chien, F; de Jager, M; van Noort, J
2008-03-15
We introduce a simple method for dynamic force spectroscopy with magnetic tweezers. This method allows application of subpiconewton force and twist control by calibration of the applied force from the height of the magnets. Initial dynamic force spectroscopy experiments on DNA molecules revealed a large hysteresis that is caused by viscous drag on the magnetic bead and will conceal weak interactions. When smaller beads are used, this hysteresis is sufficiently reduced to reveal intramolecular interactions at subpiconewton forces. Compared with typical quasistatic force spectroscopy, a significant reduction of measurement time is achieved, allowing the real-time study of transient structures and reaction intermediates. As a proof of principle, nucleosome-nucleosome interactions on a subsaturated chromatin fiber were analyzed.
Sparse deconvolution for the large-scale ill-posed inverse problem of impact force reconstruction
NASA Astrophysics Data System (ADS)
Qiao, Baijie; Zhang, Xingwu; Gao, Jiawei; Liu, Ruonan; Chen, Xuefeng
2017-01-01
Most previous regularization methods for solving the inverse problem of force reconstruction are to minimize the l2-norm of the desired force. However, these traditional regularization methods such as Tikhonov regularization and truncated singular value decomposition, commonly fail to solve the large-scale ill-posed inverse problem in moderate computational cost. In this paper, taking into account the sparse characteristic of impact force, the idea of sparse deconvolution is first introduced to the field of impact force reconstruction and a general sparse deconvolution model of impact force is constructed. Second, a novel impact force reconstruction method based on the primal-dual interior point method (PDIPM) is proposed to solve such a large-scale sparse deconvolution model, where minimizing the l2-norm is replaced by minimizing the l1-norm. Meanwhile, the preconditioned conjugate gradient algorithm is used to compute the search direction of PDIPM with high computational efficiency. Finally, two experiments including the small-scale or medium-scale single impact force reconstruction and the relatively large-scale consecutive impact force reconstruction are conducted on a composite wind turbine blade and a shell structure to illustrate the advantage of PDIPM. Compared with Tikhonov regularization, PDIPM is more efficient, accurate and robust whether in the single impact force reconstruction or in the consecutive impact force reconstruction.
Undulator with dynamic compensation of magnetic forces
Gluskin, Efim; Trakhtenberg, Emil; Xu, Joseph Z.
2016-05-31
A method and apparatus for implementing dynamic compensation of magnetic forces for undulators are provided. An undulator includes a respective set of magnet arrays, each attached to a strongback, and placed on horizontal slides and positioned parallel relative to each other with a predetermined gap. Magnetic forces are compensated by a set of compensation springs placed along the strongback. The compensation springs are conical springs having exponential-force characteristics that substantially match undulator magnetic forces independently of the predetermined gap. The conical springs are positioned along the length of the magnets.
Tensor-based Dictionary Learning for Dynamic Tomographic Reconstruction
Tan, Shengqi; Zhang, Yanbo; Wang, Ge; Mou, Xuanqin; Cao, Guohua; Wu, Zhifang; Yu, Hengyong
2015-01-01
In dynamic computed tomography (CT) reconstruction, the data acquisition speed limits the spatio-temporal resolution. Recently, compressed sensing theory has been instrumental in improving CT reconstruction from far few-view projections. In this paper, we present an adaptive method to train a tensor-based spatio-temporal dictionary for sparse representation of an image sequence during the reconstruction process. The correlations among atoms and across phases are considered to capture the characteristics of an object. The reconstruction problem is solved by the alternating direction method of multipliers. To recover fine or sharp structures such as edges, the nonlocal total variation is incorporated into the algorithmic framework. Preclinical examples including a sheep lung perfusion study and a dynamic mouse cardiac imaging demonstrate that the proposed approach outperforms the vectorized dictionary-based CT reconstruction in the case of few-view reconstruction. PMID:25779991
Tensor-based dictionary learning for dynamic tomographic reconstruction
NASA Astrophysics Data System (ADS)
Tan, Shengqi; Zhang, Yanbo; Wang, Ge; Mou, Xuanqin; Cao, Guohua; Wu, Zhifang; Yu, Hengyong
2015-04-01
In dynamic computed tomography (CT) reconstruction, the data acquisition speed limits the spatio-temporal resolution. Recently, compressed sensing theory has been instrumental in improving CT reconstruction from far few-view projections. In this paper, we present an adaptive method to train a tensor-based spatio-temporal dictionary for sparse representation of an image sequence during the reconstruction process. The correlations among atoms and across phases are considered to capture the characteristics of an object. The reconstruction problem is solved by the alternating direction method of multipliers. To recover fine or sharp structures such as edges, the nonlocal total variation is incorporated into the algorithmic framework. Preclinical examples including a sheep lung perfusion study and a dynamic mouse cardiac imaging demonstrate that the proposed approach outperforms the vectorized dictionary-based CT reconstruction in the case of few-view reconstruction.
Force measurement enabling precise analysis by dynamic force spectroscopy.
Taninaka, Atsushi; Hirano, Yuuichi; Takeuchi, Osamu; Shigekawa, Hidemi
2012-01-01
Dynamic force spectroscopy (DFS) makes it possible to investigate specific interactions between two molecules such as ligand-receptor pairs at the single-molecule level. In the DFS method based on the Bell-Evans model, the unbinding force applied to a molecular bond is increased at a constant rate, and the force required to rupture the molecular bond is measured. By analyzing the relationship between the modal rupture force and the logarithm of the loading rate, microscopic potential barrier landscapes and the lifetimes of bonds can be obtained. However, the results obtained, for example, in the case of streptavidin/biotin complexes, have differed among previous studies and some results have been inconsistent with theoretical predictions. In this study, using an atomic force microscopy technique that enables the precise analysis of molecular interactions on the basis of DFS, we investigated the effect of the sampling rate on DFS analysis. The shape of rupture force histograms, for example, was significantly deformed at a sampling rate of 1 kHz in comparison with that of histograms obtained at 100 kHz, indicating the fundamental importance of ensuring suitable experimental conditions for further advances in the DFS method.
Vegetation dynamics amplifies precessional forcing
NASA Astrophysics Data System (ADS)
Claussen, Martin; Fohlmeister, Jens; Ganopolski, Andrey; Brovkin, Victor
2006-05-01
The astronomical theory of climate variations predicts that the climatic precession which changes the seasonal distance between Earth and Sun does not affect the annual mean irradiation at any given latitude. However, previous modeling studies suggest that during interglacials, the interaction between atmosphere, vegetation and ocean can transform the seasonal forcing by precession into an annual mean global signal. Here, we show that this result can be generalized. A distinct precessional signal emerges in a climate system model over many precessional cycles. While neither the atmosphere-ocean nor the atmosphere-vegetation model are able to produce a large amplitude of global temperature in the precessional band, only the mutual amplification of biogeophysical feedback and sea ice- albedo feedback allows a strong amplification of the precessional signal.
Force dynamics in fixed-ratio schedules.
Pinkston, Jonathan W; McBee, Lindsey N
2014-03-01
Fixed-ratio schedules are widely used in behavioral research. Although fixed-ratio schedules often conjure up relationships to work and effort, little is known about effort-related measures in these schedules. Early research had shown that force and effort of operant behavior vary systematically during the execution of ratio schedules, and the goal of the present study was to revisit early research on force dynamics in fixed-ratio schedules. Four rats earned sucrose by pressing an isometric force transducer. Presses produced sucrose after ten or twenty responses. In general, the force of responses increased then decreased systematically across the ratio. The possibility that decreases in force during ratio execution was due to a trade-off with the differential reinforcement of short inter-response times (IRT) was investigated in an additional condition where sucrose was made available according to a tandem fixed-ratio 19 inter-response (IRT)> t schedule. The tandem IRT requirement did not eliminate decreasing trends in force across the ratio; unexpectedly, the tandem requirement did eliminate increases in force early in the ratio, which may reflect sequence-level organization operating in the control of force dynamics.
Research on new dynamic force calibration system
NASA Astrophysics Data System (ADS)
Zhang, Li
2008-06-01
Sinusoidal force calibration method based on electrodynamic shaker and interferometric system was studied several years before at Physikalisch-Technische Bundesanstalt (PTB). In that system a load mass are screwed on the top of force transducer, the sinusoidal forces realized by accelerated load masses are traceable to acceleration and mass according to the force definition F(t) = ma(t), where m is the total mass acting on the sensing element of the force transducer and a is the time and spatial-dependent acceleration of the mass, which is directly measured by a laser interferometer. This paper will introduce a new dynamic force calibration system developed at Changcheng Institute of Metrology and Measurement (CIMM). It uses electrodynamic shakers to generate dynamic force in the range from 1N to 20kN, and heterodyne laser interferometers are used for acceleration measurement. A new air bearing system is developed to increase the performance of shakers and an active vibration isolator is used to reduce enviromental disturbance to the interferometric system.
Measurement of dynamic bite force during mastication.
Shimada, A; Yamabe, Y; Torisu, T; Baad-Hansen, L; Murata, H; Svensson, P
2012-05-01
Efficient mastication of different types and size of food depends on fast integration of sensory information from mechanoreceptors and central control mechanisms of jaw movements and applied bite force. The neural basis underlying mastication has been studied for decades but little progress in understanding the dynamics of bite force has been made mainly due to technical limitations of bite force recorders. The aims of this study were to develop a new intraoral bite force recorder which would allow the study of natural mastication without an increase in the occlusal vertical dimension and subsequently to analyze the relation between electromyographic (EMG) activity of jaw-closing muscles, jaw movements and bite force during mastication of five different types of food. Customized force recorders based on strain gauge sensors were fitted to the upper and lower molar teeth on the preferred chewing side in fourteen healthy and dentate subjects (21-39 years), and recordings were carried out during voluntary mastication of five different kinds of food. Intraoral force recordings were successively obtained from all subjects. anova showed that impulse of bite force as well as integrated EMG was significantly influenced by food (P<0·05), while time-related parameters were significantly affected by chewing cycles (P<0·001). This study demonstrates that intraoral force recordings are feasible and can provide new information on the dynamics of human mastication with direct implications for oral rehabilitation. We also propose that the control of bite force during mastication is achieved by anticipatory adjustment and encoding of bolus characteristics.
Forced synchronization of autonomous dynamical Boolean networks
NASA Astrophysics Data System (ADS)
Rivera-Durón, R. R.; Campos-Cantón, E.; Campos-Cantón, I.; Gauthier, Daniel J.
2015-08-01
We present the design of an autonomous time-delay Boolean network realized with readily available electronic components. Through simulations and experiments that account for the detailed nonlinear response of each circuit element, we demonstrate that a network with five Boolean nodes displays complex behavior. Furthermore, we show that the dynamics of two identical networks display near-instantaneous synchronization to a periodic state when forced by a common periodic Boolean signal. A theoretical analysis of the network reveals the conditions under which complex behavior is expected in an individual network and the occurrence of synchronization in the forced networks. This research will enable future experiments on autonomous time-delay networks using readily available electronic components with dynamics on a slow enough time-scale so that inexpensive data collection systems can faithfully record the dynamics.
Forced synchronization of autonomous dynamical Boolean networks.
Rivera-Durón, R R; Campos-Cantón, E; Campos-Cantón, I; Gauthier, Daniel J
2015-08-01
We present the design of an autonomous time-delay Boolean network realized with readily available electronic components. Through simulations and experiments that account for the detailed nonlinear response of each circuit element, we demonstrate that a network with five Boolean nodes displays complex behavior. Furthermore, we show that the dynamics of two identical networks display near-instantaneous synchronization to a periodic state when forced by a common periodic Boolean signal. A theoretical analysis of the network reveals the conditions under which complex behavior is expected in an individual network and the occurrence of synchronization in the forced networks. This research will enable future experiments on autonomous time-delay networks using readily available electronic components with dynamics on a slow enough time-scale so that inexpensive data collection systems can faithfully record the dynamics.
Forced synchronization of autonomous dynamical Boolean networks
Rivera-Durón, R. R. Campos-Cantón, E.; Campos-Cantón, I.; Gauthier, Daniel J.
2015-08-15
We present the design of an autonomous time-delay Boolean network realized with readily available electronic components. Through simulations and experiments that account for the detailed nonlinear response of each circuit element, we demonstrate that a network with five Boolean nodes displays complex behavior. Furthermore, we show that the dynamics of two identical networks display near-instantaneous synchronization to a periodic state when forced by a common periodic Boolean signal. A theoretical analysis of the network reveals the conditions under which complex behavior is expected in an individual network and the occurrence of synchronization in the forced networks. This research will enable future experiments on autonomous time-delay networks using readily available electronic components with dynamics on a slow enough time-scale so that inexpensive data collection systems can faithfully record the dynamics.
Identification of dynamic forces using group-sparsity in frequency domain
NASA Astrophysics Data System (ADS)
Rezayat, A.; Nassiri, V.; De Pauw, B.; Ertveldt, J.; Vanlanduit, S.; Guillaume, P.
2016-03-01
The knowledge of acting dynamic forces is required for the design of structures. Given the structural model, inverse techniques offer the possibility to reconstruct the system's input forces from vibration data. The inverse problem is highly sensitive to measurement noise, and the classical pseudo-inverse method generally fails to find the correct loads. In this paper we propose a new penalty function that combines the advantages of the ℓp-norm properties, together with a modified iterative optimization technique. The new algorithm (G-FISTA) is used to localize and reconstruct dynamic point-forces on a beam structure, with no prior knowledge on the force locations. The algorithm is validated by means of several simulations and experiments. The strain data is measured using Fiber Bragg Gratings (FBG) attached to the beam. The obtained results show that the location and time history of point forces are better estimated using the proposed technique.
The role of nonlinear dynamics in quantitative atomic force microscopy.
Platz, Daniel; Forchheimer, Daniel; Tholén, Erik A; Haviland, David B
2012-07-05
Various methods of force measurement with the atomic force microscope are compared for their ability to accurately determine the tip-surface force from analysis of the nonlinear cantilever motion. It is explained how intermodulation, or the frequency mixing of multiple drive tones by the nonlinear tip-surface force, can be used to concentrate the nonlinear motion in a narrow band of frequency near the cantilever's fundamental resonance, where accuracy and sensitivity of force measurement are greatest. Two different methods for reconstructing tip-surface forces from intermodulation spectra are explained. The reconstruction of both conservative and dissipative tip-surface interactions from intermodulation spectra are demonstrated on simulated data.
Virtual biomechanics: a new method for online reconstruction of force from EMG recordings.
de Rugy, Aymar; Loeb, Gerald E; Carroll, Timothy J
2012-12-01
Current methods to reconstruct muscle contributions to joint torque usually combine electromyograms (EMGs) with cadaver-based estimates of biomechanics, but both are imperfect representations of reality. Here, we describe a new method that enables online force reconstruction in which we optimize a "virtual" representation of muscle biomechanics. We first obtain tuning curves for the five major wrist muscles from the mean rectified EMG during the hold phase of an isometric aiming task when a cursor is driven by actual force recordings. We then apply a custom, gradient-descent algorithm to determine the set of "virtual pulling vectors" that best reach the target forces when combined with the observed muscle activity. When these pulling vectors are multiplied by the rectified and low-pass-filtered (1.3 Hz) EMG of the five muscles online, the reconstructed force provides a close spatiotemporal match to the true force exerted at the wrist. In three separate experiments, we demonstrate that the technique works equally well for surface and fine-wire recordings and is sensitive to biomechanical changes elicited by a modification of the forearm posture. In all conditions tested, muscle tuning curves obtained when the task was performed with feedback of reconstructed force were similar to those obtained when the task was performed with real force feedback. This online force reconstruction technique provides new avenues to study the relationship between neural control and limb biomechanics since the "virtual biomechanics" can be systematically altered at will.
Adaptive control of force microscope cantilever dynamics
NASA Astrophysics Data System (ADS)
Jensen, S. E.; Dougherty, W. M.; Garbini, J. L.; Sidles, J. A.
2007-09-01
Magnetic resonance force microscopy (MRFM) and other emerging scanning probe microscopies entail the detection of attonewton-scale forces. Requisite force sensitivities are achieved through the use of soft force microscope cantilevers as high resonant-Q micromechanical oscillators. In practice, the dynamics of these oscillators are greatly improved by the application of force feedback control computed in real time by a digital signal processor (DSP). Improvements include increased sensitive bandwidth, reduced oscillator ring up/down time, and reduced cantilever thermal vibration amplitude. However, when the cantilever tip and the sample are in close proximity, electrostatic and Casimir tip-sample force gradients can significantly alter the cantilever resonance frequency, foiling fixed-gain narrow-band control schemes. We report an improved, adaptive control algorithm that uses a Hilbert transform technique to continuously measure the vibration frequency of the thermally-excited cantilever and seamlessly adjust the DSP program coefficients. The closed-loop vibration amplitude is typically 0.05 nm. This adaptive algorithm enables narrow-band formally-optimal control over a wide range of resonance frequencies, and preserves the thermally-limited signal to noise ratio (SNR).
A comparison of force reconstruction methods for a lumped mass beam
Bateman, V.I.; Mayes, R.L.; Carne, T.G.
1992-11-01
Two extensions of the force reconstruction method, the Sum of Weighted Accelerations Technique (SWAT), are presented in this paper; and the results are compared to those obtained using SWAT. SWAT requires the use of the structure`s elastic mode shapes for reconstruction of the applied force. Although based on the same theory, the two, new techniques do not rely on mode shapes to reconstruct the applied force and may be applied to structures whose mode shapes are not available. One technique uses the measured force and acceleration responses with the rigid body mode shapes to calculate the scalar weighting vector, so the technique is called SWAT-CAL (SWAT using a CALibrated force input). The second technique uses only the free-decay time response of the structure with the rigid body mode shapes to calculate the scalar weighting vector and is called SWAT-TEEM (SWAT using Time Eliminated Elastic Modes).
A comparison of force reconstruction methods for a lumped mass beam
Bateman, V.I.; Mayes, R.L.; Carne, T.G.
1992-01-01
Two extensions of the force reconstruction method, the Sum of Weighted Accelerations Technique (SWAT), are presented in this paper; and the results are compared to those obtained using SWAT. SWAT requires the use of the structure's elastic mode shapes for reconstruction of the applied force. Although based on the same theory, the two, new techniques do not rely on mode shapes to reconstruct the applied force and may be applied to structures whose mode shapes are not available. One technique uses the measured force and acceleration responses with the rigid body mode shapes to calculate the scalar weighting vector, so the technique is called SWAT-CAL (SWAT using a CALibrated force input). The second technique uses only the free-decay time response of the structure with the rigid body mode shapes to calculate the scalar weighting vector and is called SWAT-TEEM (SWAT using Time Eliminated Elastic Modes).
Dynamic Ising model: reconstruction of evolutionary trees
NASA Astrophysics Data System (ADS)
de Oliveira, P. M. C.
2013-09-01
An evolutionary tree is a cascade of bifurcations starting from a single common root, generating a growing set of daughter species as time goes by. ‘Species’ here is a general denomination for biological species, spoken languages or any other entity which evolves through heredity. From the N currently alive species within a clade, distances are measured through pairwise comparisons made by geneticists, linguists, etc. The larger is such a distance that, for a pair of species, the older is their last common ancestor. The aim is to reconstruct the previously unknown bifurcations, i.e. the whole clade, from knowledge of the N(N - 1)/2 quoted distances, which are taken for granted. A mechanical method is presented and its applicability is discussed.
Quantitative Assessment of Dynamic Control of Fingertip Forces After Pollicization
Lightdale-Miric, Nina; Mueske, Nicole M.; Dayanidhi, Sudarshan; Loiselle, Jennifer; Berggren, Jamie; Lawrence, Emily L.; Stevanovic, Milan; Valero-Cuevas, Francisco J.; Wren, Tishya A. L.
2014-01-01
Dexterity after finger pollicization (reconstruction to thumb) is critical to functional outcomes. While most tests of hand function evaluate a combination of strength, coordination, and motor control, the Strength-Dexterity (S-D) paradigm focuses on the dynamic control of fingertip forces. We evaluated 10 pollicized and 5 non-pollicized hands from 8 participants ages 4–17 years (2 female, 6 male; 10.6 ± 4.5 years). Participants partially compressed and held an instrumented spring prone to buckling between the thumb and first finger to quantify dynamic control over the direction and magnitude of fingertip forces. They also completed traditional functional tests including grip, lateral pinch, and tripod pinch strength, Box and Blocks, and 9-hole peg test. Six of 10 pollicized hands and all non-pollicized hands had S-D scores comparable to typically developing children. However, dynamical analysis showed that pollicized hands exhibit greater variability in compression force, indicating poorer corrective action. Almost all pollicized hands scored below the normal range for the traditional functional tests. The S-D test Z-scores correlated moderately with Z-scores from the other functional tests (r=0.54–0.61; p= 0.02–0.04) but more weakly than amongst the other functional measures (r=0.58–0.83; p=0.0002–0.02), suggesting that the S-D test captures a different domain of function. A higher incidence of radial absence in the hands with poor S-D scores (3/4 vs. 0/6 in hands with normal S-D scores, p=0.03) was the only clinical characteristic associated with S-D outcome. Overall, these results suggest that while most pollicized hands can control fingertip forces, the nature of that control is altered. PMID:25262333
Reconstruction dynamics of recorded holograms in photochromic glass.
Mihailescu, Mona; Pavel, Eugen; Nicolae, Vasile B
2011-06-20
We have investigated the dynamics of the record-erase process of holograms in photochromic glass using continuum Nd:YVO₄ laser radiation (λ=532 nm). A bidimensional microgrid pattern was formed and visualized in photochromic glass, and its diffraction efficiency decay versus time (during reconstruction step) gave us information (D, Δn) about the diffusion process inside the material. The recording and reconstruction processes were carried out in an off-axis setup, and the images of the reconstructed object were recorded by a CCD camera. Measurements realized on reconstructed object images using holograms recorded at a different incident power laser have shown a two-stage process involved in silver atom kinetics.
Dynamic force signal processing system of a robot manipulator
NASA Technical Reports Server (NTRS)
Uchiyama, M.; Kitagaki, K.; Hakomori, K.
1987-01-01
If dynamic noises such as those caused by the inertia forces of the hand can be eliminated from the signal of the force sensor installed on the wrist of the robot manipulator and if the necessary information of the external force can be detected with high sensitivity and high accuracy, a fine force feedback control for robots used in high speed and various fields will be possible. As the dynamic force sensing system, an external force estimate method with the extended Kalman filter is suggested and simulations and tests for a one axis force were performed. Later a dynamic signal processing system of six axes was composed and tested. The results are presented.
Relativistic Newtonian Dynamics under a central force
NASA Astrophysics Data System (ADS)
Friedman, Yaakov
2016-10-01
Planck's formula and General Relativity indicate that potential energy influences spacetime. Using Einstein's Equivalence Principle and an extension of his Clock Hypothesis, an explicit description of this influence is derived. We present a new relativity model by incorporating the influence of the potential energy on spacetime in Newton's dynamics for motion under a central force. This model extends the model used by Friedman and Steiner (EPL, 113 (2016) 39001) to obtain the exact precession of Mercury without curving spacetime. We also present a solution of this model for a hydrogen-like atom, which explains the reason for a probabilistic description.
Impact-force sparse reconstruction from highly incomplete and inaccurate measurements
NASA Astrophysics Data System (ADS)
Qiao, Baijie; Zhang, Xingwu; Gao, Jiawei; Chen, Xuefeng
2016-08-01
The classical l2-norm-based regularization methods applied for force reconstruction inverse problem require that the number of measurements should not be less than the number of unknown sources. Taking into account the sparse nature of impact-force in time domain, we develop a general sparse methodology based on minimizing l1-norm for solving the highly underdetermined model of impact-force reconstruction. A monotonic two-step iterative shrinkage/thresholding (MTWIST) algorithm is proposed to find the sparse solution to such an underdetermined model from highly incomplete and inaccurate measurements, which can be problematic with Tikhonov regularization. MTWIST is highly efficient for large-scale ill-posed problems since it mainly involves matrix-vector multiplies without matrix factorization. In sparsity frame, the proposed sparse regularization method can not only determine the actual impact location from many candidate sources but also simultaneously reconstruct the time history of impact-force. Simulation and experiment including single-source and two-source impact-force reconstruction are conducted on a simply supported rectangular plate and a shell structure to illustrate the effectiveness and applicability of MTWIST, respectively. Both the locations and force time histories of the single-source and two-source cases are accurately reconstructed from a single accelerometer, where the high noise level is considered in simulation and the primary noise in experiment is supposed to be colored noise. Meanwhile, the consecutive impact-forces reconstruction in a large-scale (greater than 104) sparse frame illustrates that MTWIST has advantages of computational efficiency and identification accuracy over Tikhonov regularization.
Forced and internal variability in temperature simulations and reconstructions of the Common Era
NASA Astrophysics Data System (ADS)
Fernández-Donado, Laura; Fidel González-Rouco, J.; Garcia-Bustamante, Elena; Smerdon, Jason S.; Luterbacher, Juerg; Raible, Christoph C.
2016-04-01
The relatively short ranges of external forcing variability within the CE represent a challenge in as much as the consistency between simulations and reconstructions can be affected by the large uncertainties in their respective responses to the external forcings. One of the core questions within this work relates therefore the extent to which a straight response to the external forcing can be identified during the period under study and whether this signal is common to simulated and reconstructed temperature. This study is based on an exhaustive compilation, analysis and intercomparison of the available hemispherical and global temperature reconstructions as well as a complete ensemble of simulations including both PMIP3/CMIP5 and non-PMIP3 model experiments. In addition, the various external forcing configurations applied to the models are characterized and a Total External Forcing, including all the individual forcing contributors, is developed for each experiment. Based on the linear relationship found at multidecadal and longer timescales during the last millennium between the temperature and the total external forcing, a quantitative metric of the ratio of response, the so-called Last Millennium Transient Climate Response (LMTCR), is obtained and compared for simulations and reconstructions. Within the LMTCR context, a significant quantitative consistency between the simulations and reconstructions is addressed. This work also offers a discussion about the impact that a range of generally accepted methodological approaches might have on the reconstructed ensemble uncertainties and their influences on model-data comparison exercises. A segregation among the various existing spatial targets within the NH, based on the different level of temperatura variability observed in the series, suggests a lower level of model-data consistency during the MCA than previously reported.
Reconstruction of Attitude Dynamics of Free Falling Units
NASA Astrophysics Data System (ADS)
Yuan, Y.; Ivchenko, N.; Tibert, G.; Schlatter, N. M.
2015-09-01
Attitude reconstruction of a free falling sphere for the experiment Multiple Spheres for Characterization of Atmosphere Temperatures (MUSCAT) is studied in this paper. The attitude dynamics is modeled through Euler's rotational equations of motion. To estimate uncertain parameters in this model such as the matrix of inertia and the lever arm for the dynamic pressure with respect to the center of mass, the dynamics reconstruction can be formulated as an optimization problem. The goal is to minimize the deviation between the measurements and the propagation from the system equations. This approach was tested against a couple of flight data sets which correspond to different periods of time. The result is very reasonable compared to the laboratory test. The estimate can be improved further through allowing drag coefficients variable and taking advantage of measurements from a magnetometer in numerical calculation.
A molecular dynamics investigation of surface reconstruction on magnetite (001)
NASA Astrophysics Data System (ADS)
Rustad, J. R.; Wasserman, E.; Felmy, A. R.
1999-07-01
Molecular dynamics calculations using analytical potential functions with polarizable oxygen ions have been used to identify a novel mode of reconstruction on the half-occupied tetrahedral layer termination of the magnetite (Fe 3O 4) (001) surface. In the proposed reconstruction, the twofold coordinated iron ion in the top monolayer rotates downward to occupy a vacant half-octahedral site in the plane of the second-layer iron ions. At the same time, half of the tetrahedral iron ions in the third iron layer are pushed upward to occupy an adjacent octahedral vacancy at the level of the second-layer iron ions. The other half of the third-layer iron ions remain roughly in their original positions. The proposed reconstruction is consistent with recent low-energy electron diffraction and X-ray photoelectron spectroscopy results. It also provides a compelling interpretation for the arrangement of atoms suggested by high-resolution scanning-tunneling microscopy studies.
Climate Forcing Reconstructions for Use in PMIP Simulations of the Last Millennium (v1.0)
NASA Technical Reports Server (NTRS)
Schmidt, Gavin A.; Jungclaus, J.H.; Steinhilber, F.; Vieira, L. E. A.; Ammann, C. M.; Bard, E.; Braconnot, P.; Crowley, T. J.; Delayque, G.; Joos, F.; Krivova, N. A.; Muscheler, R.; Otto-Bliesner, B. L.; Pongratz, J.; Shindell, D. T.; Solanki, S. K.
2011-01-01
Simulations of climate over the Last Millennium (850-1850 CE) have been incorporated into the third phase of the Paleoclimate Modelling Intercomparison Project (PMIP3). The drivers of climate over this period are chiefly orbital, solar, volcanic, changes in land use/land cover and some variation in greenhouse gas levels. While some of these effects can be easily defined, the reconstructions of solar, volcanic and land use-related forcing are more uncertain. We describe here the approach taken in defining the scenarios used in PMIP3, document the forcing reconstructions and discuss likely implications.
Setterbo, Jacob J.; Chau, Anh; Fyhrie, Patricia B.; Hubbard, Mont; Upadhyaya, Shrini K.; Symons, Jennifer E.; Stover, Susan M.
2012-01-01
Background Racetrack surface is a risk factor for racehorse injuries and fatalities. Current research indicates that race surface mechanical properties may be influenced by material composition, moisture content, temperature, and maintenance. Race surface mechanical testing in a controlled laboratory setting would allow for objective evaluation of dynamic properties of surface and factors that affect surface behavior. Objective To develop a method for reconstruction of race surfaces in the laboratory and validate the method by comparison with racetrack measurements of dynamic surface properties. Methods Track-testing device (TTD) impact tests were conducted to simulate equine hoof impact on dirt and synthetic race surfaces; tests were performed both in situ (racetrack) and using laboratory reconstructions of harvested surface materials. Clegg Hammer in situ measurements were used to guide surface reconstruction in the laboratory. Dynamic surface properties were compared between in situ and laboratory settings. Relationships between racetrack TTD and Clegg Hammer measurements were analyzed using stepwise multiple linear regression. Results Most dynamic surface property setting differences (racetrack-laboratory) were small relative to surface material type differences (dirt-synthetic). Clegg Hammer measurements were more strongly correlated with TTD measurements on the synthetic surface than the dirt surface. On the dirt surface, Clegg Hammer decelerations were negatively correlated with TTD forces. Conclusions Laboratory reconstruction of racetrack surfaces guided by Clegg Hammer measurements yielded TTD impact measurements similar to in situ values. The negative correlation between TTD and Clegg Hammer measurements confirms the importance of instrument mass when drawing conclusions from testing results. Lighter impact devices may be less appropriate for assessing dynamic surface properties compared to testing equipment designed to simulate hoof impact (TTD
Free energy reconstruction from steered dynamics without post-processing
Athenes, Manuel; Marinica, Mihai-Cosmin
2010-09-20
Various methods achieving importance sampling in ensembles of nonequilibrium trajectories enable one to estimate free energy differences and, by maximum-likelihood post-processing, to reconstruct free energy landscapes. Here, based on Bayes theorem, we propose a more direct method in which a posterior likelihood function is used both to construct the steered dynamics and to infer the contribution to equilibrium of all the sampled states. The method is implemented with two steering schedules. First, using non-autonomous steering, we calculate the migration barrier of the vacancy in Fe-{alpha}. Second, using an autonomous scheduling related to metadynamics and equivalent to temperature-accelerated molecular dynamics, we accurately reconstruct the two-dimensional free energy landscape of the 38-atom Lennard-Jones cluster as a function of an orientational bond-order parameter and energy, down to the solid-solid structural transition temperature of the cluster and without maximum-likelihood post-processing.
Influence of surfactants in forced dynamic dewetting.
Henrich, Franziska; Fell, Daniela; Truszkowska, Dorota; Weirich, Marcel; Anyfantakis, Manos; Nguyen, Thi-Huong; Wagner, Manfred; Auernhammer, Günter K; Butt, Hans-Jürgen
2016-09-20
In this work we show that the forced dynamic dewetting of surfactant solutions depends sensitively on the surfactant concentration. To measure this effect, a hydrophobic rotating cylinder was horizontally half immersed in aqueous surfactant solutions. Dynamic contact angles were measured optically by extrapolating the contour of the meniscus to the contact line. Anionic (sodium 1-decanesulfonate, S-1DeS), cationic (cetyl trimethylammonium bromide, CTAB) and nonionic surfactants (C4E1, C8E3 and C12E5) with critical micelle concentrations (CMCs) spanning four orders of magnitude were used. The receding contact angle in water decreased with increasing velocity. This decrease was strongly enhanced when adding surfactant, even at surfactant concentrations of 10% of the critical micelle concentration. Plots of the receding contact angle-versus-velocity almost superimpose when being plotted at the same relative concentration (concentration/CMC). Thus the rescaled concentration is the dominating property for dynamic dewetting. The charge of the surfactants did not play a role, thus excluding electrostatic effects. The change in contact angle can be interpreted by local surface tension gradients, i.e. Marangoni stresses, close to the three-phase contact line. The decrease of dynamic contact angles with velocity follows two regimes. Despite the existence of Marangoni stresses close to the contact line, for a dewetting velocity above 1-10 mm s(-1) the hydrodynamic theory is able to describe the experimental results for all surfactant concentrations. At slower velocities an additional steep decrease of the contact angle with velocity was observed. Particle tracking velocimetry showed that the flow profiles do not differ with and without surfactant on a scales >100 μm.
Yang, Jian; Cong, Weijian; Chen, Yang; Fan, Jingfan; Liu, Yue; Wang, Yongtian
2014-02-21
The clinical value of the 3D reconstruction of a coronary artery is important for the diagnosis and intervention of cardiovascular diseases. This work proposes a method based on a deformable model for reconstructing coronary arteries from two monoplane angiographic images acquired from different angles. First, an external force back-projective composition model is developed to determine the external force, for which the force distributions in different views are back-projected to the 3D space and composited in the same coordinate system based on the perspective projection principle of x-ray imaging. The elasticity and bending forces are composited as an internal force to maintain the smoothness of the deformable curve. Second, the deformable curve evolves rapidly toward the true vascular centerlines in 3D space and angiographic images under the combination of internal and external forces. Third, densely matched correspondence among vessel centerlines is constructed using a curve alignment method. The bundle adjustment method is then utilized for the global optimization of the projection parameters and the 3D structures. The proposed method is validated on phantom data and routine angiographic images with consideration for space and re-projection image errors. Experimental results demonstrate the effectiveness and robustness of the proposed method for the reconstruction of coronary arteries from two monoplane angiographic images. The proposed method can achieve a mean space error of 0.564 mm and a mean re-projection error of 0.349 mm.
Tensor-based dynamic reconstruction method for electrical capacitance tomography
NASA Astrophysics Data System (ADS)
Lei, J.; Mu, H. P.; Liu, Q. B.; Li, Z. H.; Liu, S.; Wang, X. Y.
2017-03-01
Electrical capacitance tomography (ECT) is an attractive visualization measurement method, in which the acquisition of high-quality images is beneficial for the understanding of the underlying physical or chemical mechanisms of the dynamic behaviors of the measurement objects. In real-world measurement environments, imaging objects are often in a dynamic process, and the exploitation of the spatial-temporal correlations related to the dynamic nature will contribute to improving the imaging quality. Different from existing imaging methods that are often used in ECT measurements, in this paper a dynamic image sequence is stacked into a third-order tensor that consists of a low rank tensor and a sparse tensor within the framework of the multiple measurement vectors model and the multi-way data analysis method. The low rank tensor models the similar spatial distribution information among frames, which is slowly changing over time, and the sparse tensor captures the perturbations or differences introduced in each frame, which is rapidly changing over time. With the assistance of the Tikhonov regularization theory and the tensor-based multi-way data analysis method, a new cost function, with the considerations of the multi-frames measurement data, the dynamic evolution information of a time-varying imaging object and the characteristics of the low rank tensor and the sparse tensor, is proposed to convert the imaging task in the ECT measurement into a reconstruction problem of a third-order image tensor. An effective algorithm is developed to search for the optimal solution of the proposed cost function, and the images are reconstructed via a batching pattern. The feasibility and effectiveness of the developed reconstruction method are numerically validated.
Hydrodynamic boundary conditions and dynamic forces between bubbles and surfaces.
Manor, Ofer; Vakarelski, Ivan U; Tang, Xiaosong; O'Shea, Sean J; Stevens, Geoffrey W; Grieser, Franz; Dagastine, Raymond R; Chan, Derek Y C
2008-07-11
Dynamic forces between a 50 microm radius bubble driven towards and from a mica plate using an atomic force microscope in electrolyte and in surfactant exhibit different hydrodynamic boundary conditions at the bubble surface. In added surfactant, the forces are consistent with the no-slip boundary condition at the mica and bubble surfaces. With no surfactant, a new boundary condition that accounts for the transport of trace surface impurities explains variations of dynamic forces at different speeds and provides a direct connection between dynamic forces and surface transport effects at the air-water interface.
Hydrodynamic Boundary Conditions and Dynamic Forces between Bubbles and Surfaces
NASA Astrophysics Data System (ADS)
Manor, Ofer; Vakarelski, Ivan U.; Tang, Xiaosong; O'Shea, Sean J.; Stevens, Geoffrey W.; Grieser, Franz; Dagastine, Raymond R.; Chan, Derek Y. C.
2008-07-01
Dynamic forces between a 50μm radius bubble driven towards and from a mica plate using an atomic force microscope in electrolyte and in surfactant exhibit different hydrodynamic boundary conditions at the bubble surface. In added surfactant, the forces are consistent with the no-slip boundary condition at the mica and bubble surfaces. With no surfactant, a new boundary condition that accounts for the transport of trace surface impurities explains variations of dynamic forces at different speeds and provides a direct connection between dynamic forces and surface transport effects at the air-water interface.
NASA Astrophysics Data System (ADS)
Turney, Chris S. M.; Fogwill, Christopher J.; Palmer, Jonathan G.; van Sebille, Erik; Thomas, Zoë; McGlone, Matt; Richardson, Sarah; Wilmshurst, Janet M.; Fenwick, Pavla; Zunz, Violette; Goosse, Hugues; Wilson, Kerry-Jayne; Carter, Lionel; Lipson, Mathew; Jones, Richard T.; Harsch, Melanie; Clark, Graeme; Marzinelli, Ezequiel; Rogers, Tracey; Rainsley, Eleanor; Ciasto, Laura; Waterman, Stephanie; Thomas, Elizabeth R.; Visbeck, Martin
2017-03-01
Occupying about 14 % of the world's surface, the Southern Ocean plays a fundamental role in ocean and atmosphere circulation, carbon cycling and Antarctic ice-sheet dynamics. Unfortunately, high interannual variability and a dearth of instrumental observations before the 1950s limits our understanding of how marine-atmosphere-ice domains interact on multi-decadal timescales and the impact of anthropogenic forcing. Here we integrate climate-sensitive tree growth with ocean and atmospheric observations on southwest Pacific subantarctic islands that lie at the boundary of polar and subtropical climates (52-54° S). Our annually resolved temperature reconstruction captures regional change since the 1870s and demonstrates a significant increase in variability from the 1940s, a phenomenon predating the observational record. Climate reanalysis and modelling show a parallel change in tropical Pacific sea surface temperatures that generate an atmospheric Rossby wave train which propagates across a large part of the Southern Hemisphere during the austral spring and summer. Our results suggest that modern observed high interannual variability was established across the mid-twentieth century, and that the influence of contemporary equatorial Pacific temperatures may now be a permanent feature across the mid- to high latitudes.
Reconstruction of Holocene carbon dynamics in a large boreal peatland complex, southern Finland
NASA Astrophysics Data System (ADS)
Mathijssen, Paul J. H.; Väliranta, Minna; Korrensalo, Aino; Alekseychik, Pavel; Vesala, Timo; Rinne, Janne; Tuittila, Eeva-Stiina
2016-06-01
Holocene peatland development and associated carbon (C) dynamics were reconstructed for a southern boreal Finnish peatland complex with fen and bog areas. In order to assess the role of local factors and long-term allogenic climate forcing in peatland development patterns, we studied a total of 18 peat cores and reconstructed vertical peat growth and lateral peat area expansion rates, the C accumulation rate (CAR), past vegetation composition and past methane (CH4) fluxes. We combined fossil plant data with measured contemporary CH4 flux - vegetation relationship data to reconstruct CH4 fluxes over time. When these reconstructions were added to the CAR estimations, a more complete picture of Holocene-scale C dynamics was achieved. Basal peat ages showed that expansion of the peat area was rapid between 11,000 and 8000 cal. BP, but decreased during the dry mid-Holocene and is probably currently limited by basal topography. A similar pattern was observed for peat growth and CAR in the fen core, whereas in the bog core CAR increased after ombrotrophication, i.e. after 4400 cal. BP. The effect of fire on vegetation and CAR was more conspicuous at the bog site than at the fen site. The CH4 flux reconstructions showed that during the Holocene CH4 emissions at the fen site decreased from 19 ± 15 to 16 ± 8 g CH4 m-2 yr-1 and at the bog site from 20 ± 15 to 14 ± 8 g CH4 m-2 yr-1. Our results suggest that a combination of changing climate, fire events and local conditions have modified the autogenic peatland development and C dynamics.
Simultaneous reconstruction and segmentation for dynamic SPECT imaging
NASA Astrophysics Data System (ADS)
Burger, Martin; Rossmanith, Carolin; Zhang, Xiaoqun
2016-10-01
This work deals with the reconstruction of dynamic images that incorporate characteristic dynamics in certain subregions, as arising for the kinetics of many tracers in emission tomography (SPECT, PET). We make use of a basis function approach for the unknown tracer concentration by assuming that the region of interest can be divided into subregions with spatially constant concentration curves. Applying a regularised variational framework reminiscent of the Chan-Vese model for image segmentation we simultaneously reconstruct both the labelling functions of the subregions as well as the subconcentrations within each region. Our particular focus is on applications in SPECT with the Poisson noise model, resulting in a Kullback-Leibler data fidelity in the variational approach. We present a detailed analysis of the proposed variational model and prove existence of minimisers as well as error estimates. The latter apply to a more general class of problems and generalise existing results in literature since we deal with a nonlinear forward operator and a nonquadratic data fidelity. A computational algorithm based on alternating minimisation and splitting techniques is developed for the solution of the problem and tested on appropriately designed synthetic data sets. For those we compare the results to those of standard EM reconstructions and investigate the effects of Poisson noise in the data.
Low dose dynamic myocardial CT perfusion using advanced iterative reconstruction
NASA Astrophysics Data System (ADS)
Eck, Brendan L.; Fahmi, Rachid; Fuqua, Christopher; Vembar, Mani; Dhanantwari, Amar; Bezerra, Hiram G.; Wilson, David L.
2015-03-01
Dynamic myocardial CT perfusion (CTP) can provide quantitative functional information for the assessment of coronary artery disease. However, x-ray dose in dynamic CTP is high, typically from 10mSv to >20mSv. We compared the dose reduction potential of advanced iterative reconstruction, Iterative Model Reconstruction (IMR, Philips Healthcare, Cleveland, Ohio) to hybrid iterative reconstruction (iDose4) and filtered back projection (FBP). Dynamic CTP scans were obtained using a porcine model with balloon-induced ischemia in the left anterior descending coronary artery to prescribed fractional flow reserve values. High dose dynamic CTP scans were acquired at 100kVp/100mAs with effective dose of 23mSv. Low dose scans at 75mAs, 50mAs, and 25mAs were simulated by adding x-ray quantum noise and detector electronic noise to the projection space data. Images were reconstructed with FBP, iDose4, and IMR at each dose level. Image quality in static CTP images was assessed by SNR and CNR. Blood flow was obtained using a dynamic CTP analysis pipeline and blood flow image quality was assessed using flow-SNR and flow-CNR. IMR showed highest static image quality according to SNR and CNR. Blood flow in FBP was increasingly over-estimated at reduced dose. Flow was more consistent for iDose4 from 100mAs to 50mAs, but was over-estimated at 25mAs. IMR was most consistent from 100mAs to 25mAs. Static images and flow maps for 100mAs FBP, 50mAs iDose4, and 25mAs IMR showed comparable, clear ischemia, CNR, and flow-CNR values. These results suggest that IMR can enable dynamic CTP at significantly reduced dose, at 5.8mSv or 25% of the comparable 23mSv FBP protocol.
Dynamical Modeling and Excitation Reconstruction as Fundamental of Earth Rotation Prediction
NASA Astrophysics Data System (ADS)
Zotov, L. V.
2010-01-01
Though pure mathematical approximations such as regression models and neural networks show good results in Earth rotation forecasting, dynamical modeling remains the only base for the physically meaningful prediction. That assumes the knowledge of cause-effect relationships and physical model of the rotating Earth. Excitation reconstruction from the observed Earth orientation parameters (EOP) is a crucial stage, needed for comparison with known causes, such as tidal forcing, atmospheric (AAM), oceanic (OAM) angular momentum changes, and uncovering unknown ones. We demonstrate different approaches, which can be used to avoid ill-conditionality and amplification of noises during the inversion. We present amplitude and phase studies of the model and reconstructed excitations of Chandler wobble. We found out, that modulation of Chandler excitation is synchronous with 18-yr tidal effects in the Earth's rotation rate changes. The results of the study can be used for excitation and EOP forecast. The key issues of the EOP prediction are discussed.
Synchrony dynamics underlying effective connectivity reconstruction of neuronal circuits
NASA Astrophysics Data System (ADS)
Yu, Haitao; Guo, Xinmeng; Qin, Qing; Deng, Yun; Wang, Jiang; Liu, Jing; Cao, Yibin
2017-04-01
Reconstruction of effective connectivity between neurons is essential for neural systems with function-related significance, characterizing directionally causal influences among neurons. In this work, causal interactions between neurons in spinal dorsal root ganglion, activated by manual acupuncture at Zusanli acupoint of experimental rats, are estimated using Granger causality (GC) method. Different patterns of effective connectivity are obtained for different frequencies and types of acupuncture. Combined with synchrony analysis between neurons, we show a dependence of effective connection on the synchronization dynamics. Based on the experimental findings, a neuronal circuit model with synaptic connections is constructed. The variation of neuronal effective connectivity with respect to its structural connectivity and synchronization dynamics is further explored. Simulation results show that reciprocally causal interactions with statistically significant are formed between well-synchronized neurons. The effective connectivity may be not necessarily equivalent to synaptic connections, but rather depend on the synchrony relationship. Furthermore, transitions of effective interaction between neurons are observed following the synchronization transitions induced by conduction delay and synaptic conductance. These findings are helpful to further investigate the dynamical mechanisms underlying the reconstruction of effective connectivity of neuronal population.
Experiments of reconstructing discrete atmospheric dynamic models from data (I)
NASA Astrophysics Data System (ADS)
Lin, Zhenshan; Zhu, Yanyu; Deng, Ziwang
1995-03-01
In this paper, we give some experimental results of our study in reconstructing discrete atmospheric dynamic models from data. After a great deal of numerical experiments, we found that the logistic map, x n + 1 = 1- μx {2/n}, could be used in monthly mean temperature prediction when it was approaching the chaotic region, and its predictive results were in reverse states to the practical data. This means that the nonlinear developing behavior of the monthly mean temperature system is bifurcating back into the critical chaotic states from the chaotic ones.
Dynamic force patterns of an undulatory microswimmer.
Schulman, Rafael D; Backholm, Matilda; Ryu, William S; Dalnoki-Veress, Kari
2014-05-01
We probe the viscous forces involved in the undulatory swimming of the model organism C. elegans. Using micropipette deflection, we attain direct measurements of lateral and propulsive forces produced in response to the motion of the worm. We observe excellent agreement of the results with resistive force theory, through which we determine the drag coefficients of this organism. The drag coefficients are in accordance with theoretical predictions. Using a simple scaling argument, we obtain a relationship between the size of the worm and the forces that we measure, which well describes our data.
Dynamic force patterns of an undulatory microswimmer
NASA Astrophysics Data System (ADS)
Schulman, Rafael D.; Backholm, Matilda; Ryu, William S.; Dalnoki-Veress, Kari
2014-05-01
We probe the viscous forces involved in the undulatory swimming of the model organism C. elegans. Using micropipette deflection, we attain direct measurements of lateral and propulsive forces produced in response to the motion of the worm. We observe excellent agreement of the results with resistive force theory, through which we determine the drag coefficients of this organism. The drag coefficients are in accordance with theoretical predictions. Using a simple scaling argument, we obtain a relationship between the size of the worm and the forces that we measure, which well describes our data.
Single-molecule reconstruction of oligonucleotide secondary structure by atomic force microscopy.
Pyne, Alice; Thompson, Ruth; Leung, Carl; Roy, Debdulal; Hoogenboom, Bart W
2014-08-27
Based on soft-touch atomic force microscopy, a method is described to reconstruct the secondary structure of single extended biomolecules, without the need for crystallization. The method is tested by accurately reproducing the dimensions of the B-DNA crystal structure. Importantly, intramolecular variations in groove depth of the DNA double helix are resolved, which would be inaccessible for methods that rely on ensemble-averaging.
Force reconstruction using the sum of weighted accelerations technique -- Max-Flat procedure
Carne, T.G.; Mayes, R.L.; Bateman, V.I.
1993-12-31
Force reconstruction is a procedure in which the externally applied force is inferred from measured structural response rather than directly measured. In a recently developed technique, the response acceleration time-histories are multiplied by scalar weights and summed to produce the reconstructed force. This reconstruction is called the Sum of Weighted Accelerations Technique (SWAT). One step in the application of this technique is the calculation of the appropriate scalar weights. In this paper a new method of estimating the weights, using measured frequency response function data, is developed and contrasted with the traditional SWAT method of inverting the mode-shape matrix. The technique uses frequency response function data, but is not based on deconvolution. An application that will be discussed as part of this paper is the impact into a rigid barrier of a weapon system with an energy-absorbing nose. The nose had been designed to absorb the energy of impact and to mitigate the shock to the interior components.
Static and dynamical Meissner force fields
NASA Technical Reports Server (NTRS)
Weinberger, B. R.; Lynds, L.; Hull, J. R.; Mulcahy, T. M.
1991-01-01
The coupling between copper-based high temperature superconductors (HTS) and magnets is represented by a force field. Zero-field cooled experiments were performed with several forms of superconductors: 1) cold-pressed sintered cylindrical disks; 2) small particles fixed in epoxy polymers; and 3) small particles suspended in hydrocarbon waxes. Using magnets with axial field symmetries, direct spatial force measurements in the range of 0.1 to 10(exp 4) dynes were performed with an analytical balance and force constants were obtained from mechanical vibrational resonances. Force constants increase dramatically with decreasing spatial displacement. The force field displays a strong temperature dependence between 20 and 90 K and decreases exponentially with increasing distance of separation. Distinct slope changes suggest the presence of B-field and temperature-activated processes that define the forces. Hysteresis measurements indicated that the magnitude of force scales roughly with the volume fraction of HTS in composite structures. Thus, the net force resulting from the field interaction appears to arise from regions as small or smaller than the grain size and does not depend on contiguous electron transport over large areas. Results of these experiments are discussed.
Dynamic Data-Driven Event Reconstruction for Atmospheric Releases
Kosovic, B; Belles, R; Chow, F K; Monache, L D; Dyer, K; Glascoe, L; Hanley, W; Johannesson, G; Larsen, S; Loosmore, G; Lundquist, J K; Mirin, A; Neuman, S; Nitao, J; Serban, R; Sugiyama, G; Aines, R
2007-02-22
Accidental or terrorist releases of hazardous materials into the atmosphere can impact large populations and cause significant loss of life or property damage. Plume predictions have been shown to be extremely valuable in guiding an effective and timely response. The two greatest sources of uncertainty in the prediction of the consequences of hazardous atmospheric releases result from poorly characterized source terms and lack of knowledge about the state of the atmosphere as reflected in the available meteorological data. In this report, we discuss the development of a new event reconstruction methodology that provides probabilistic source term estimates from field measurement data for both accidental and clandestine releases. Accurate plume dispersion prediction requires the following questions to be answered: What was released? When was it released? How much material was released? Where was it released? We have developed a dynamic data-driven event reconstruction capability which couples data and predictive models through Bayesian inference to obtain a solution to this inverse problem. The solution consists of a probability distribution of unknown source term parameters. For consequence assessment, we then use this probability distribution to construct a ''''composite'' forward plume prediction which accounts for the uncertainties in the source term. Since in most cases of practical significance it is impossible to find a closed form solution, Bayesian inference is accomplished by utilizing stochastic sampling methods. This approach takes into consideration both measurement and forward model errors and thus incorporates all the sources of uncertainty in the solution to the inverse problem. Stochastic sampling methods have the additional advantage of being suitable for problems characterized by a non-Gaussian distribution of source term parameters and for cases in which the underlying dynamical system is non-linear. We initially developed a Markov Chain Monte
Lautenschlager, Stephan
2013-01-01
The estimation of bite force and bite performance in fossil and extinct animals is a challenging subject in palaeontology and is highly dependent on the reconstruction of the cranial myology. Furthermore, the morphology and arrangement of the adductor muscles considerably affect feeding processes and mastication and thus also have important dietary and ecological ramifications. However, in the past, the reconstruction of the (cranial) muscles was restricted to the identification of muscle attachment sites or simplified computer models. This study presents a detailed reconstruction of the adductor musculature of the Cretaceous therizinosaur Erlikosaurus andrewsi based on a stepwise and iterative approach. The detailed, three-dimensional models of the individual muscles allow for more accurate measurements of the muscle properties (length, cross-section, attachment angle and volume), from which muscle and bite force estimates are calculated. Bite force estimations are found to be the lowest at the tip of the snout (43–65 N) and respectively higher at the first (59–88 N) and last tooth (90–134 N) position. Nevertheless, bite forces are comparatively low for E. andrewsi, both in actual numbers as well as in comparison with other theropod dinosaurs. The results further indicate that the low bite performance was mainly used for leaf-stripping and plant cropping, rather than active mastication or chewing processes. Muscle and thus bite force in E. andrewsi (and most likely all therizinosaurs) is considerably constrained by the cranial anatomy and declines in derived taxa of this clade. This trend is reflected in the changes of dietary preferences from carnivory to herbivory in therizinosaurs. PMID:23061752
Force fields for classical molecular dynamics.
Monticelli, Luca; Tieleman, D Peter
2013-01-01
In this chapter we review the basic features and the principles underlying molecular mechanics force fields commonly used in molecular modeling of biological macromolecules. We start by summarizing the historical background and then describe classical pairwise additive potential energy functions. We introduce the problem of the calculation of nonbonded interactions, of particular importance for charged macromolecules. Different parameterization philosophies are then presented, followed by a section on force field validation. We conclude with a brief overview on future perspectives for the development of classical force fields.
Reconstruction of missing daily streamflow data using dynamic regression models
NASA Astrophysics Data System (ADS)
Tencaliec, Patricia; Favre, Anne-Catherine; Prieur, Clémentine; Mathevet, Thibault
2015-12-01
River discharge is one of the most important quantities in hydrology. It provides fundamental records for water resources management and climate change monitoring. Even very short data-gaps in this information can cause extremely different analysis outputs. Therefore, reconstructing missing data of incomplete data sets is an important step regarding the performance of the environmental models, engineering, and research applications, thus it presents a great challenge. The objective of this paper is to introduce an effective technique for reconstructing missing daily discharge data when one has access to only daily streamflow data. The proposed procedure uses a combination of regression and autoregressive integrated moving average models (ARIMA) called dynamic regression model. This model uses the linear relationship between neighbor and correlated stations and then adjusts the residual term by fitting an ARIMA structure. Application of the model to eight daily streamflow data for the Durance river watershed showed that the model yields reliable estimates for the missing data in the time series. Simulation studies were also conducted to evaluate the performance of the procedure.
Application of DIRI dynamic infrared imaging in reconstructive surgery
NASA Astrophysics Data System (ADS)
Pawlowski, Marek; Wang, Chengpu; Jin, Feng; Salvitti, Matthew; Tenorio, Xavier
2006-04-01
We have developed the BioScanIR System based on QWIP (Quantum Well Infrared Photodetector). Data collected by this sensor are processed using the DIRI (Dynamic Infrared Imaging) algorithms. The combination of DIRI data processing methods with the unique characteristics of the QWIP sensor permit the creation of a new imaging modality capable of detecting minute changes in temperature at the surface of the tissue and organs associated with blood perfusion due to certain diseases such as cancer, vascular disease and diabetes. The BioScanIR System has been successfully applied in reconstructive surgery to localize donor flap feeding vessels (perforators) during the pre-surgical planning stage. The device is also used in post-surgical monitoring of skin flap perfusion. Since the BioScanIR is mobile; it can be moved to the bedside for such monitoring. In comparison to other modalities, the BioScanIR can localize perforators in a single, 20 seconds scan with definitive results available in minutes. The algorithms used include (FFT) Fast Fourier Transformation, motion artifact correction, spectral analysis and thermal image scaling. The BioScanIR is completely non-invasive and non-toxic, requires no exogenous contrast agents and is free of ionizing radiation. In addition to reconstructive surgery applications, the BioScanIR has shown promise as a useful functional imaging modality in neurosurgery, drug discovery in pre-clinical animal models, wound healing and peripheral vascular disease management.
Tung, Ryan C. Killgore, Jason P.; Hurley, Donna C.
2014-06-14
We present a method to correct for surface-coupled inertial and viscous fluid loading forces in contact resonance (CR) atomic force microscopy (AFM) experiments performed in liquid. Based on analytical hydrodynamic theory, the method relies on experimental measurements of the AFM cantilever's free resonance peaks near the sample surface. The free resonance frequencies and quality factors in both air and liquid allow reconstruction of a continuous hydrodynamic function that can be used to adjust the CR data in liquid. Validation experiments utilizing thermally excited free and in-contact spectra were performed to assess the accuracy of our approach. Results show that the method recovers the air frequency values within approximately 6%. Knowledge of fluid loading forces allows current CR analysis techniques formulated for use in air and vacuum environments to be applied to liquid environments. Our technique greatly extends the range of measurement environments available to CR-AFM.
Traceable dynamic calibration of force transducers by primary means
NASA Astrophysics Data System (ADS)
Vlajic, Nicholas; Chijioke, Ako
2016-08-01
We describe an apparatus for traceable, dynamic calibration of force transducers using harmonic excitation, and report calibration measurements of force transducers using this apparatus. In this system, the force applied to the transducer is produced by the acceleration of an attached mass, and is determined according to Newton’s second law, F = ma. The acceleration is measured by primary means, using laser interferometry. The capabilities of this system are demonstrated by performing dynamic calibrations of two shear-web-type force transducers up to a frequency of 2 kHz, with an expanded uncertainty below 1.2%. We give an account of all significant sources of uncertainty, including a detailed consideration of the effects of dynamic tilting (rocking), which is a leading source of uncertainty in such harmonic force calibration systems.
Dynamic Forces in Spur Gears - Measurement, Prediction, and Code Validation
NASA Technical Reports Server (NTRS)
Oswald, Fred B.; Townsend, Dennis P.; Rebbechi, Brian; Lin, Hsiang Hsi
1996-01-01
Measured and computed values for dynamic loads in spur gears were compared to validate a new version of the NASA gear dynamics code DANST-PC. Strain gage data from six gear sets with different tooth profiles were processed to determine the dynamic forces acting between the gear teeth. Results demonstrate that the analysis code successfully simulates the dynamic behavior of the gears. Differences between analysis and experiment were less than 10 percent under most conditions.
Forcing function diagnostics for nonlinear dynamics.
Hooker, Giles
2009-09-01
This article investigates the problem of model diagnostics for systems described by nonlinear ordinary differential equations (ODEs). I propose modeling lack of fit as a time-varying correction to the right-hand side of a proposed differential equation. This correction can be described as being a set of additive forcing functions, estimated from data. Representing lack of fit in this manner allows us to graphically investigate model inadequacies and to suggest model improvements. I derive lack-of-fit tests based on estimated forcing functions. Model building in partially observed systems of ODEs is particularly difficult and I consider the problem of identification of forcing functions in these systems. The methods are illustrated with examples from computational neuroscience.
Stable dynamics in forced systems with sufficiently high/low forcing frequency.
Bartuccelli, M; Gentile, G; Wright, J A
2016-08-01
We consider parametrically forced Hamiltonian systems with one-and-a-half degrees of freedom and study the stability of the dynamics when the frequency of the forcing is relatively high or low. We show that, provided the frequency is sufficiently high, Kolmogorov-Arnold-Moser (KAM) theorem may be applied even when the forcing amplitude is far away from the perturbation regime. A similar result is obtained for sufficiently low frequency, but in that case we need the amplitude of the forcing to be not too large; however, we are still able to consider amplitudes which are outside of the perturbation regime. In addition, we find numerically that the dynamics may be stable even when the forcing amplitude is very large, well beyond the range of validity of the analytical results, provided the frequency of the forcing is taken correspondingly low.
Dynamic Force Patterns of an Undulatory Microswimmer
NASA Astrophysics Data System (ADS)
Schulman, Rafael; Backholm, Matilda; Ryu, William; Dalnoki-Veress, Kari
2014-03-01
C. elegans is a millimeter-sized nematode which has served as a model organism in biology for several decades, primarily due to its simple anatomy. Using an undulatory form of locomotion, this worm is capable of propelling itself through various media. Due to the small length scales involved, swimming in this regime is qualitatively different from macroscopic locomotion because the swimmers can be considered to have no inertia. In order to understand the microswimming that this worm exhibits, it is crucial to determine the viscous forces experienced during its motion. Using a micropipette deflection technique in conjunction with high speed imaging, we have directly measured the time-varying forces generated by C. elegans during swimming. Furthermore, by analyzing the body's kinematics over time and applying a model of locomotion, we can compute the theoretical force curves. We observe excellent agreement between the measured and calculated forces. The success of this simple model has important implications in the understanding of microswimming in general.
An automated algorithm for the generation of dynamically reconstructed trajectories
NASA Astrophysics Data System (ADS)
Komalapriya, C.; Romano, M. C.; Thiel, M.; Marwan, N.; Kurths, J.; Kiss, I. Z.; Hudson, J. L.
2010-03-01
The lack of long enough data sets is a major problem in the study of many real world systems. As it has been recently shown [C. Komalapriya, M. Thiel, M. C. Romano, N. Marwan, U. Schwarz, and J. Kurths, Phys. Rev. E 78, 066217 (2008)], this problem can be overcome in the case of ergodic systems if an ensemble of short trajectories is available, from which dynamically reconstructed trajectories can be generated. However, this method has some disadvantages which hinder its applicability, such as the need for estimation of optimal parameters. Here, we propose a substantially improved algorithm that overcomes the problems encountered by the former one, allowing its automatic application. Furthermore, we show that the new algorithm not only reproduces the short term but also the long term dynamics of the system under study, in contrast to the former algorithm. To exemplify the potential of the new algorithm, we apply it to experimental data from electrochemical oscillators and also to analyze the well-known problem of transient chaotic trajectories.
Supersonic Flight Dynamics Test 2: Trajectory, Atmosphere, and Aerodynamics Reconstruction
NASA Technical Reports Server (NTRS)
Karlgaard, Christopher D.; O'Farrell, Clara; Ginn, Jason M.; Van Norman, John W.
2016-01-01
The Supersonic Flight Dynamics Test is a full-scale flight test of aerodynamic decelerator technologies developed by the Low Density Supersonic Decelerator technology demonstration project. The purpose of the project is to develop and mature aerodynamic decelerator technologies for landing large-mass payloads on the surface of Mars. The technologies include a Supersonic Inflatable Aerodynamic Decelerator and supersonic parachutes. The first Supersonic Flight Dynamics Test occurred on June 28th, 2014 at the Pacific Missile Range Facility. The purpose of this test was to validate the test architecture for future tests. The flight was a success and, in addition, was able to acquire data on the aerodynamic performance of the supersonic inflatable decelerator. The Supersonic Disksail parachute developed a tear during deployment. The second flight test occurred on June 8th, 2015, and incorporated a Supersonic Ringsail parachute which was redesigned based on data from the first flight. Again, the inflatable decelerator functioned as predicted but the parachute was damaged during deployment. This paper describes the instrumentation, analysis techniques, and acquired flight test data utilized to reconstruct the vehicle trajectory, main motor thrust, atmosphere, and aerodynamics.
Effects of nonlinear forces on dynamic mode atomic force microscopy and spectroscopy.
Das, Soma; Sreeram, P A; Raychaudhuri, A K
2007-06-01
In this paper, we describe the effects of nonlinear tip-sample forces on dynamic mode atomic force microscopy and spectroscopy. The jumps and hysteresis observed in the vibration amplitude (A) versus tip-sample distance (h) curves have been traced to bistability in the resonance curve. A numerical analysis of the basic dynamic equation was used to explain the hysteresis in the experimental curve. It has been found that the location of the hysteresis in the A-h curve depends on the frequency of the forced oscillation relative to the natural frequency of the cantilever.
Generalized force model of traffic dynamics
NASA Astrophysics Data System (ADS)
Helbing, Dirk; Tilch, Benno
1998-07-01
Floating car data of car-following behavior in cities were compared to existing microsimulation models, after their parameters had been calibrated to the experimental data. With these parameter values, additional simulations have been carried out, e.g., of a moving car which approaches a stopped car. It turned out that, in order to manage such kinds of situations without producing accidents, improved traffic models are needed. Good results were obtained with the proposed generalized force model.
Dynamic Data-Driven Event Reconstruction for Atmospheric Releases
Mirin, A A; Kosovic, B
2007-03-29
Accidental or terrorist releases of hazardous materials into the atmosphere can impact large populations and cause significant loss of life or property damage. Plume predictions have been shown to be extremely valuable in guiding an effective and timely response. The two greatest sources of uncertainty in the prediction of the consequences of hazardous atmospheric releases result from poorly characterized source terms and lack of knowledge about the state of the atmosphere as reflected in the available meteorological data. We have developed a new event reconstruction methodology that provides probabilistic source term estimates from field measurement data for both accidental and clandestine releases. Accurate plume dispersion prediction requires the following questions to be answered: What was released? When was it released? How much material was released? Where was it released? We have developed a dynamic-data-driven event reconstruction capability that couples data and predictive methods through Bayesian inference to obtain a solution to this inverse problem. The solution consists of a probability distribution of unknown source term parameters. For consequence assessment, we then use this probability distribution to construct a 'composite' forward plume prediction that accounts for the uncertainties in the source term. Since in most cases of practical significance it is impossible to find a closed form solution, Bayesian inference is accomplished by utilizing stochastic sampling methods. This approach takes into consideration both measurement and forward model errors and thus incorporates all the sources of uncertainty in the solution to the inverse problem. Stochastic sampling methods have the additional advantage of being suitable for problems characterized by a non-Gaussian distribution of source term parameters and for cases in which the underlying dynamical system is nonlinear. We initially developed a Markov Chain Monte Carlo (MCMC) stochastic methodology
The Dynamics of Coughing and Forced Expiration,
The study analyzes the factors which make coughing an effective mechanism to expel noxious agents and mucus secreted as a response to these agents...research is based on studies done on human subjects and on computer simulation, both lines of research progressing simultaneously. Dynamics of coughing
Static and dynamic buckling of reconstructions at triple steps on Si(111) surfaces
Zhachuk, R. Teys, S.; Coutinho, J.; Rayson, M. J.; Briddon, P. R.
2014-10-27
Triple steps on Si(111) surfaces are popular building blocks for bottom-up nanostructure assembly, conferring size uniformity and precise positioning of growing nanostructures. In this work, we employ the Si(7 7 10) regular stepped surface as model system to study the triple steps by scanning tunneling microscopy (STM) and large-scale first-principles calculations. We find a surprising cohabitation of reconstruction elements at the step edge that either buckles statically or dynamically at room temperature. The driving force for the observed sequence of buckling patterns is traced back to Coulomb interactions involving charged adatoms and rest-atoms lying on a mini-terrace. These results reconcile the Si(111) triple step model with the experimental STM data.
Molecular Mechanotransduction: how forces trigger cytoskeletal dynamics
NASA Astrophysics Data System (ADS)
Ehrlicher, Allen
2012-02-01
Mechanical stresses elicit cellular reactions mediated by chemical signals. Defective responses to forces underlie human medical disorders, such as cardiac failure and pulmonary injury. Despite detailed knowledge of the cytoskeleton's structure, the specific molecular switches that convert mechanical stimuli into chemical signals have remained elusive. Here we identify the actin-binding protein, filamin A (FLNa) as a central mechanotransduction element of the cytoskeleton by using Fluorescence Loss After photoConversion (FLAC), a novel high-speed alternative to FRAP. We reconstituted a minimal system consisting of actin filaments, FLNa and two FLNa-binding partners: the cytoplasmic tail of ß-integrin, and FilGAP. Integrins form an essential mechanical linkage between extracellular and intracellular environments, with ß integrin tails connecting to the actin cytoskeleton by binding directly to filamin. FilGAP is a FLNa-binding GTPase-activating protein specific for Rac, which in vivo regulates cell spreading and bleb formation. We demonstrate that both externally-imposed bulk shear and myosin II driven forces differentially regulate the binding of integrin and FilGAP to FLNa. Consistent with structural predictions, strain increases ß-integrin binding to FLNa, whereas it causes FilGAP to dissociate from FLNa, providing a direct and specific molecular basis for cellular mechanotransduction. These results identify the first molecular mechanotransduction element within the actin cytoskeleton, revealing that mechanical strain of key proteins regulates the binding of signaling molecules. Moreover, GAP activity has been shown to switch cell movement from mesenchymal to amoeboid motility, suggesting that mechanical forces directly impact the invasiveness of cancer.
Ross, Michael; Cap, Jerome S.; Starr, Michael J.; Urbina, Angel; Brink, Adam Ray
2015-12-01
One of the more severe environments for a store on an aircraft is during the ejection of the store. During this environment it is not possible to instrument all component responses, and it is also likely that some instruments may fail during the environment testing. This work provides a method for developing these responses from failed gages and uninstrumented locations. First, the forces observed by the store during the environment are reconstructed. A simple sampling method is used to reconstruct these forces given various parameters. Then, these forces are applied to a model to generate the component responses. Validation is performed on this methodology.
Dynamics of thermal Casimir-Polder forces on polar molecules
Ellingsen, Simen Aadnoey; Buhmann, Stefan Yoshi; Scheel, Stefan
2009-05-15
We study the influence of thermal Casimir-Polder forces on the near-surface trapping of cold polar molecules, with emphasis on LiH and YbF near a Au surface at room temperature. We show that even for a molecule initially prepared in its electronic and rovibrational ground state, the Casimir-Polder force oscillates with the molecule-wall separation. The nonresonant force and the evanescent part of the resonant force almost exactly cancel at high temperature which results in a saturation of the (attractive) force in this limit. This implies that the Casimir-Polder force on a fully thermalized molecule can differ dramatically from that obtained using a naive perturbative expansion of the Lifshitz formula based on the molecular ground-state polarizability. A dynamical calculation reveals how the spatial oscillations die out on a typical time scale of several seconds as thermalization of the molecule with its environment sets in.
Mean and covariance properties of dynamic PET reconstructions from list-mode data.
Asma, Evren; Leahy, Richard M
2006-01-01
We derive computationally efficient methods for the estimation of the mean and variance properties of penalized likelihood dynamic positron emission tomography (PET) images. This allows us to predict the accuracy of reconstructed activity estimates and to compare reconstruction algorithms theoretically. We combine a bin-mode approach in which data is modeled as a collection of independent Poisson random variables at each spatiotemporal bin with the space-time separabilities in the imaging equation and penalties to derive rapidly computable analytic mean and variance approximations. We use these approximations to compare bias/variance properties of our dynamic PET image reconstruction algorithm with those of multiframe static PET reconstructions.
Ares I-X First Stage Separation Loads and Dynamics Reconstruction
NASA Technical Reports Server (NTRS)
Demory, Lee; Rooker, BIll; Jarmulowicz, Marc; Glaese, John
2011-01-01
The Ares I-X flight test provided NASA with the opportunity to test hardware and gather critical data to ensure the success of future Ares I flights. One of the primary test flight objectives was to evaluate the environment during First Stage separation to better understand the conditions that the J-2X second stage engine will experience at ignition [1]. A secondary objective was to evaluate the effectiveness of the stage separation motors. The Ares I-X flight test vehicle was successfully launched on October 29, 2009, achieving most of its primary and secondary test objectives. Ground based video camera recordings of the separation event appeared to show recontact of the First Stage and the Upper Stage Simulator followed by an unconventional tumbling of the Upper Stage Simulator. Closer inspection of the videos and flight test data showed that recontact did not occur. Also, the motion during staging was as predicted through CFD analysis performed during the Ares I-X development. This paper describes the efforts to reconstruct the vehicle dynamics and loads through the staging event by means of a time integrated simulation developed in TREETOPS, a multi-body dynamics software tool developed at NASA [2]. The simulation was built around vehicle mass and geometry properties at the time of staging and thrust profiles for the first stage solid rocket motor as well as for the booster deceleration motors and booster tumble motors. Aerodynamic forces were determined by models created from a combination of wind tunnel testing and CFD. The initial conditions such as position, velocity, and attitude were obtained from the Best Estimated Trajectory (BET), which is compiled from multiple ground based and vehicle mounted instruments. Dynamic loads were calculated by subtracting the inertial forces from the applied forces. The simulation results were compared to the Best Estimated Trajectory, accelerometer flight data, and to ground based video.
NASA Astrophysics Data System (ADS)
Lan, Fei; Jiang, Minlin; Tao, Quan; Wei, Fanan; Li, Guangyong
2017-03-01
A Kelvin probe force microscopy (KPFM) image is sometimes difficult to interpret because it is a blurred representation of the true surface potential (SP) distribution of the materials under test. The reason for the blurring is that KPFM relies on the detection of electrostatic force, which is a long-range force compared to other surface forces. Usually, KPFM imaging model is described as the convolution of the true SP distribution of the sample with an intrinsic point spread function (PSF) of the measurement system. To restore the true SP signals from the blurred ones, the intrinsic PSF of the system is needed. In this work, we present a way to experimentally calibrate the PSF of the KPFM system. Taking the actual probe shape and experimental parameters into consideration, this calibration method leads to a more accurate PSF than the ones obtained from simulations. Moreover, a nonlinear reconstruction algorithm based on total variation (TV) regularization is applied to KPFM measurement to reverse the blurring caused by PSF during KPFM imaging process; as a result, noises are reduced and the fidelity of SP signals is improved.
Seasonally forced disease dynamics explored as switching between attractors
NASA Astrophysics Data System (ADS)
Keeling, Matt J.; Rohani, Pejman; Grenfell, Bryan T.
2001-01-01
Biological phenomena offer a rich diversity of problems that can be understood using mathematical techniques. Three key features common to many biological systems are temporal forcing, stochasticity and nonlinearity. Here, using simple disease models compared to data, we examine how these three factors interact to produce a range of complicated dynamics. The study of disease dynamics has been amongst the most theoretically developed areas of mathematical biology; simple models have been highly successful in explaining the dynamics of a wide variety of diseases. Models of childhood diseases incorporate seasonal variation in contact rates due to the increased mixing during school terms compared to school holidays. This ‘binary’ nature of the seasonal forcing results in dynamics that can be explained as switching between two nonlinear spiral sinks. Finally, we consider the stability of the attractors to understand the interaction between the deterministic dynamics and demographic and environmental stochasticity. Throughout attention is focused on the behaviour of measles, whooping cough and rubella.
Surface reconstruction in reactive dynamics: A kinetic Monte Carlo approach
NASA Astrophysics Data System (ADS)
Noussiou, V. K.; Provata, A.
2007-07-01
The oscillatory CO oxidation reaction on the restructuring surface of Pt(1 0 0) is studied through a mesoscopic kinetic Monte Carlo (KMC) approach. The present model is an extension of the standard ZGB model with specific attention to the emergence of oscillations in surface reactions. A square and a purely hexagonal lattice are used as substrates on which the CO oxidation reaction steps take place. The dynamics of the reaction on the two substrates exhibit the ZGB kinetic phase transitions, at different kinetic parameter values for each substrate. Surface reconstruction is modelled through switching between the two lattice types. Oscillations are produced in those parametric areas where the steady state concentrations on the two substrates are considerably different. The parametric area where notable oscillations are observed is narrow, but is greatly enhanced when different sticking coefficients of oxygen are taken into account. CO diffusion introduced microscopically to the model on the hexagonal lattice shifts the kinetic transition points and increases considerably the time needed to reach the steady state.
Identifying the Stern-Gerlach force of classical electron dynamics
Wen, Meng; Bauke, Heiko; Keitel, Christoph H.
2016-01-01
Different classical theories are commonly applied in various branches of physics to describe the relativistic dynamics of electrons by coupled equations for the orbital motion and spin precession. Exemplarily, we benchmark the Frenkel model and the classical Foldy-Wouthuysen model with spin-dependent forces (Stern-Gerlach forces) to the quantum dynamics as predicted by the Dirac equation. Both classical theories can lead to different or even contradicting predictions how the Stern-Gerlach forces modify the electron’s orbital motion, when the electron moves in strong electromagnetic field configurations of emerging high-intensity laser facilities. In this way, one may evaluate the validity and identify the limits of these classical theories via a comparison with possible experiments to provide a proper description of spin-induced dynamics. Our results indicate that the Foldy-Wouthuysen model is qualitatively in better agreement with the Dirac theory than the widely used Frenkel model. PMID:27546820
Dynamic forces between bubbles and surfaces and hydrodynamic boundary conditions.
Manor, Ofer; Vakarelski, Ivan U; Stevens, Geoffrey W; Grieser, Franz; Dagastine, Raymond R; Chan, Derek Y C
2008-10-21
A bubble attached to the end of an atomic force microscope cantilever and driven toward or away from a flat mica surface across an aqueous film is used to characterize the dynamic force that arises from hydrodynamic drainage and electrical double layer interactions across the nanometer thick intervening aqueous film. The hydrodynamic response of the air/water interface can range from a classical fully immobile, no-slip surface in the presence of added surfactants to a partially mobile interface in an electrolyte solution without added surfactants. A model that includes the convection and diffusion of trace surface contaminants can account for the observed behavior presented. This model predicts quantitatively different interfacial dynamics to the Navier slip model that can also be used to fit dynamic force data with a post hoc choice of a slip length.
Dynamic Forces Between Two Deformable Oil Droplets in Water
NASA Astrophysics Data System (ADS)
Dagastine, Raymond R.; Manica, Rogério; Carnie, Steven L.; Chan, D. Y. C.; Stevens, Geoffrey W.; Grieser, Franz
2006-07-01
The understanding of static interactions in colloidal suspensions is well established, whereas dynamic interactions more relevant to biological and other suspended soft-matter systems are less well understood. We present the direct force measurement and quantitative theoretical description for dynamic forces for liquid droplets in another immiscible fluid. Analysis of this system demonstrates the strong link between interfacial deformation, static surface forces, and hydrodynamic drainage, which govern dynamic droplet-droplet interactions over the length scale of nanometers and over the time scales of Brownian collisions. The results and analysis have direct bearing on the control and manipulation of suspended droplets in soft-matter systems ranging from the emulsions in shampoo to cellular interactions.
Generalized centrifugal-force model for pedestrian dynamics
NASA Astrophysics Data System (ADS)
Chraibi, Mohcine; Seyfried, Armin; Schadschneider, Andreas
2010-10-01
A spatially continuous force-based model for simulating pedestrian dynamics is introduced which includes an elliptical volume exclusion of pedestrians. We discuss the phenomena of oscillations and overlapping which occur for certain choices of the forces. The main intention of this work is the quantitative description of pedestrian movement in several geometries. Measurements of the fundamental diagram in narrow and wide corridors are performed. The results of the proposed model show good agreement with empirical data obtained in controlled experiments.
Dynamic Force Sensing Using an Optically Trapped Probing System
Huang, Yanan; Cheng, Peng; Menq, Chia-Hsiang
2013-01-01
This paper presents the design of an adaptive observer that is implemented to enable real-time dynamic force sensing and parameter estimation in an optically trapped probing system. According to the principle of separation of estimation and control, the design of this observer is independent of that of the feedback controller when operating within the linear range of the optical trap. Dynamic force sensing, probe steering/clamping, and Brownian motion control can, therefore, be developed separately and activated simultaneously. The adaptive observer utilizes the measured motion of the trapped probe and input control effort to recursively estimate the probe–sample interaction force in real time, along with the estimation of the probing system’s trapping bandwidth. This capability is very important to achieving accurate dynamic force sensing in a time-varying process, wherein the trapping dynamics is nonstationary due to local variations of the surrounding medium. The adaptive estimator utilizes the Kalman filter algorithm to compute the time-varying gain in real time and minimize the estimation error for force probing. A series of experiments are conducted to validate the design of and assess the performance of the adaptive observer. PMID:24382944
Influence of impeller shroud forces on turbopump rotor dynamics
NASA Technical Reports Server (NTRS)
Williams, Jim P.; Childs, Dara W.
1989-01-01
The shrouded-impeller leakage path forces calculated by Childs (1987) have been analyzed to answer two questions. First, because of certain characteristics of the results of Childs, the forces could not be modeled with traditional approaches. Therefore, an approach has been devised to include the forces in conventional rotordynamic analyses. The forces were approximated by traditional stiffness, damping and inertia coefficients with the addition of whirl-frequency-dependent direct and cross-coupled stiffness terms. The forces were found to be well-modeled with this approach. Finally, the effect these forces had on a simple rotor-bearing system was analyzed, and, therefore, they, in addition to seal forces, were applied to a Jeffcott rotor. The traditional methods of dynamic system analysis were modified to incorporate the impeller forces and yielded results for the eigenproblem, frequency response, critical speed, transient response and an iterative technique for finding the frequency of free vibration as well as system stability. All results lead to the conclusion that the forces have little influence on natural frequency but can have appreciable effects on system stability. Specifically, at higher values of fluid swirl at the leakage path entrance, relative stability is reduced. The only unexpected response characteristics that occurred are attributed to the nonlinearity of the model.
Dynamics of the force exchanged between membrane inclusions.
Fournier, Jean-Baptiste
2014-03-28
We study the dynamical response of a fluid membrane to the sudden conformation change of active inclusions linearly coupled to the membrane curvature. The mutual force between two inclusions triggered simultaneously is shown to exhibit a transient maximum much larger than the equilibrium force. Even in the presence of tension, this dynamical interaction is long range over distances much larger than the correlation length. We derive the scaling laws describing these phenomena analytically, and we stress the importance of the damping due to intermonolayer friction.
Dynamics of Cell Area and Force during Spreading
Brill-Karniely, Yifat; Nisenholz, Noam; Rajendran, Kavitha; Dang, Quynh; Krishnan, Ramaswamy; Zemel, Assaf
2014-01-01
Experiments on human pulmonary artery endothelial cells are presented to show that cell area and the force exerted on a substrate increase simultaneously, but with different rates during spreading; rapid-force increase systematically occurred several minutes past initial spreading. We examine this theoretically and present three complementary mechanisms that may accompany the development of lamellar stress during spreading and underlie the observed behavior. These include: 1), the dynamics of cytoskeleton assembly at the cell basis; 2), the strengthening of acto-myosin forces in response to the generated lamellar stresses; and 3), the passive strain-stiffening of the cytoskeleton. PMID:25517168
Approximate photochemical dynamics of azobenzene with reactive force fields
Li, Yan; Hartke, Bernd
2013-12-14
We have fitted reactive force fields of the ReaxFF type to the ground and first excited electronic states of azobenzene, using global parameter optimization by genetic algorithms. Upon coupling with a simple energy-gap transition probability model, this setup allows for completely force-field-based simulations of photochemical cis→trans- and trans→cis-isomerizations of azobenzene, with qualitatively acceptable quantum yields. This paves the way towards large-scale dynamics simulations of molecular machines, including bond breaking and formation (via the reactive force field) as well as photochemical engines (presented in this work)
Approximate photochemical dynamics of azobenzene with reactive force fields
NASA Astrophysics Data System (ADS)
Li, Yan; Hartke, Bernd
2013-12-01
We have fitted reactive force fields of the ReaxFF type to the ground and first excited electronic states of azobenzene, using global parameter optimization by genetic algorithms. Upon coupling with a simple energy-gap transition probability model, this setup allows for completely force-field-based simulations of photochemical cis→trans- and trans→cis-isomerizations of azobenzene, with qualitatively acceptable quantum yields. This paves the way towards large-scale dynamics simulations of molecular machines, including bond breaking and formation (via the reactive force field) as well as photochemical engines (presented in this work).
Universal data-based method for reconstructing complex networks with binary-state dynamics
NASA Astrophysics Data System (ADS)
Li, Jingwen; Shen, Zhesi; Wang, Wen-Xu; Grebogi, Celso; Lai, Ying-Cheng
2017-03-01
To understand, predict, and control complex networked systems, a prerequisite is to reconstruct the network structure from observable data. Despite recent progress in network reconstruction, binary-state dynamics that are ubiquitous in nature, technology, and society still present an outstanding challenge in this field. Here we offer a framework for reconstructing complex networks with binary-state dynamics by developing a universal data-based linearization approach that is applicable to systems with linear, nonlinear, discontinuous, or stochastic dynamics governed by monotonic functions. The linearization procedure enables us to convert the network reconstruction into a sparse signal reconstruction problem that can be resolved through convex optimization. We demonstrate generally high reconstruction accuracy for a number of complex networks associated with distinct binary-state dynamics from using binary data contaminated by noise and missing data. Our framework is completely data driven, efficient, and robust, and does not require any a priori knowledge about the detailed dynamical process on the network. The framework represents a general paradigm for reconstructing, understanding, and exploiting complex networked systems with binary-state dynamics.
Model based control of dynamic atomic force microscope
NASA Astrophysics Data System (ADS)
Lee, Chibum; Salapaka, Srinivasa M.
2015-04-01
A model-based robust control approach is proposed that significantly improves imaging bandwidth for the dynamic mode atomic force microscopy. A model for cantilever oscillation amplitude and phase dynamics is derived and used for the control design. In particular, the control design is based on a linearized model and robust H∞ control theory. This design yields a significant improvement when compared to the conventional proportional-integral designs and verified by experiments.
Model based control of dynamic atomic force microscope.
Lee, Chibum; Salapaka, Srinivasa M
2015-04-01
A model-based robust control approach is proposed that significantly improves imaging bandwidth for the dynamic mode atomic force microscopy. A model for cantilever oscillation amplitude and phase dynamics is derived and used for the control design. In particular, the control design is based on a linearized model and robust H(∞) control theory. This design yields a significant improvement when compared to the conventional proportional-integral designs and verified by experiments.
Model based control of dynamic atomic force microscope
Lee, Chibum; Salapaka, Srinivasa M.
2015-04-15
A model-based robust control approach is proposed that significantly improves imaging bandwidth for the dynamic mode atomic force microscopy. A model for cantilever oscillation amplitude and phase dynamics is derived and used for the control design. In particular, the control design is based on a linearized model and robust H{sub ∞} control theory. This design yields a significant improvement when compared to the conventional proportional-integral designs and verified by experiments.
Dynamics of living phytoplankton: Implications for paleoenvironmental reconstructions
NASA Astrophysics Data System (ADS)
Barbosa, A. B.
2009-01-01
Phytoplankton is the dominant primary producer in aquatic ecosystems and is considered a gauge of ecological condition and change. Some phytoplankton groups, namely diatoms, dinoflagellates, and coccolithophores, produce morphological or chemical fossils that can be used for paleoenvironmental reconstruction. This study aims to review the processes that regulate dynamics in living phytoplankton and to highlight how this knowledge is used in paleoecological studies. The distribution patterns of phytoplankton in present-day aquatic ecosystems are shaped by the interplay between processes that regulate cell growth and cell death. Cell growth and cell death are regulated by the internal environment of phytoplankton (e.g., specific environmental tolerances, resource uptake properties, cell size, density and morphology, alternative nutritional strategies such as mixotrophy or N2 uptake, motility, intracellular storage capacities, grazing resistance properties), and by its external environment. The external environment includes variables dependent on the availability of resources (e.g., light intensity, concentration of CO2 and dissolved inorganic macronutrients and micronutrients, availability of living prey in case of mixotrophs) and variables independent of resources (e.g., temperature, salinity, turbulence, ultraviolet radiation, bioactive compounds, activity of grazers, viruses, and eukaryotic parasites). The importance of recently described loss processes, such as grazing by phagotrophic protists, viral lyses, and programmed cell death, is discussed in the context of its potential impact upon phytoplankton vertical fluxes. Examples of the use of different phytoplankton metrics (e.g. abundance, species composition, species morphology, and elemental composition) to infer contemporaneous as well as past environmental and ecological conditions are critically evaluated.
Monitoring dynamic loads on wind tunnel force balances
NASA Technical Reports Server (NTRS)
Ferris, Alice T.; White, William C.
1989-01-01
Two devices have been developed at NASA Langley to monitor the dynamic loads incurred during wind-tunnel testing. The Balance Dynamic Display Unit (BDDU), displays and monitors the combined static and dynamic forces and moments in the orthogonal axes. The Balance Critical Point Analyzer scales and sums each normalized signal from the BDDU to obtain combined dynamic and static signals that represent the dynamic loads at predefined high-stress points. The display of each instrument is a multiplex of six analog signals in a way that each channel is displayed sequentially as one-sixth of the horizontal axis on a single oscilloscope trace. Thus this display format permits the operator to quickly and easily monitor the combined static and dynamic level of up to six channels at the same time.
Reconstructing long-term gully dynamics in Mediterranean agricultural areas
NASA Astrophysics Data System (ADS)
Hayas, Antonio; Vanwalleghem, Tom; Laguna, Ana; Peña, Adolfo; Giráldez, Juan V.
2017-01-01
Gully erosion is an important erosive process in Mediterranean basins. However, the long-term dynamics of gully networks and the variations in sediment production in gullies are not well known. Available studies are often conducted only over a few years, while many gully networks form, grow, and change in response to environmental and land use or management changes over a long period. In order to clarify the effect of these changes, it is important to analyse the evolution of the gully network with a high temporal resolution. This study aims at analysing gully morphodynamics over a long timescale (1956-2013) in a large Mediterranean area in order to quantify gully erosion processes and their contribution to overall sediment dynamics. A gully network of 20 km2 located in southwestern Spain has been analysed using a sequence of 10 aerial photographs in the period 1956-2013. The extension of the gully network both increased and decreased in the study period. Gully drainage density varied between 1.93 km km-2 in 1956, a minimum of 1.37 km km-2 in 1980, and a maximum of 5.40 km km-2 in 2013. The main controlling factor of gully activity appeared to be rainfall. Land use changes were found to have only a secondary effect. A new Monte Carlo-based approach was proposed to reconstruct gully erosion rates from orthophotos. Gully erosion rates were found to be relatively stable between 1956 and 2009, with a mean value of 11.2 t ha-1 yr-1. In the period 2009-2011, characterized by severe winter rainfalls, this value increased significantly to 591 t ha-1 yr-1. These results show that gully erosion rates are highly variable and that a simple interpolation between the starting and ending dates greatly underestimates gully contribution during certain years, such as, for example, between 2009 and 2011. This illustrates the importance of the methodology applied using a high temporal resolution of orthophotos.
Influence of impeller shroud forces on turbopump rotor dynamics
NASA Technical Reports Server (NTRS)
Williams, J. P.; Childs, Dara W.
1993-01-01
The shrouded-impeller leakage path forces calculated by Childs have been analyzed to answer two questions. First, because of certain characteristics or the results of Childs, the forces could not be modeled with traditional approaches. Therefore, an approach has been devised to include the forces in conventional rotordynamic analyses. The forces were found to be well-modeled with this approach. Finally, the effect these forces had on a simple rotor-bearing system was analyzed, and, therefore, they, in addition to seal forces, were applied to a Jeffcott rotor. The traditional methods of dynamic system analysis were modified to incorporate the impeller forces and yielded results for the eigenproblem, frequency response, critical speed, transient response, and an iterative technique for finding the frequency of free vibration as well as system stability. All results lead to the conclusion that the forces have little influence on natural frequency but can have appreciable effects on system stability. Specifically, at higher values of fluid swirl at the leakage path entrance, relative stability is reduced. The only unexpected response characteristics that occurred are attributed to the nonlinearity of the model.
NASA Astrophysics Data System (ADS)
Lai, Pik-Yin
2017-02-01
Reconstructing network connection topology and interaction strengths solely from measurement of the dynamics of the nodes is a challenging inverse problem of broad applicability in various areas of science and engineering. For a discrete-time step network under noises whose noise-free dynamics is stationary, we derive general analytic results relating the weighted connection matrix of the network to the correlation functions obtained from time-series measurements of the nodes for networks with one-dimensional intrinsic node dynamics. Information about the intrinsic node dynamics and the noise strengths acting on the nodes can also be obtained. Based on these results, we develop a scheme that can reconstruct the above information of the network using only the time-series measurements of node dynamics as input. Reconstruction formulas for higher-dimensional node dynamics are also derived and illustrated with a two-dimensional node dynamics network system. Furthermore, we extend our results and obtain a reconstruction scheme even for the cases when the noise-free dynamics is periodic. We demonstrate that our method can give accurate reconstruction results for weighted directed networks with linear or nonlinear node dynamics of various connection topologies, and with linear or nonlinear couplings.
NASA Astrophysics Data System (ADS)
Ding, X. D.; Gao, P. F.; Zhao, L. B.; Lin, G. C.
2017-04-01
Given the stray capacitance between the probe and sample surface, electrostatic force microscopy (EFM) suffers from the probe averaging effect of electrostatic signals for measuring nanoscale potential distributions. A method for reconstructing an EFM image is presented by using the step response function (SRF) as the system transfer function. The SRF is constructed numerically by conducting finite element method simulations and reconsidering both the probe shape and tip-sample distance. The deconvolution of the probe averaging effect for the electrostatic image is demonstrated using an elaborated sample of graphene ribbons that are used as nanoscale surface potential steps. The lateral resolution of the electrostatic image is improved via deconvolution. The results present a powerful tool for explaining the EFM image to reduce the probe averaging effect effectively, especially for the sample with nanoscale potential steps.
Determination of dynamic surface forces using piezoelectric arrays
NASA Astrophysics Data System (ADS)
Nitsche, W.; Mirow, P.
The experimental determination of static and dynamic surface forces on flow bodies using piezoelectric arrays is outlined. The fundamentals of the piezo-array sensor technique (sensor construction, signal separation, and signal transmission) are presented. Practical applications of piezo-arrays in the fields of airfoil aerodynamics and general flow investigations are explained. The obtained measuring results are purely qualitative.
MR-guided dynamic PET reconstruction with the kernel method and spectral temporal basis functions
NASA Astrophysics Data System (ADS)
Novosad, Philip; Reader, Andrew J.
2016-06-01
Recent advances in dynamic positron emission tomography (PET) reconstruction have demonstrated that it is possible to achieve markedly improved end-point kinetic parameter maps by incorporating a temporal model of the radiotracer directly into the reconstruction algorithm. In this work we have developed a highly constrained, fully dynamic PET reconstruction algorithm incorporating both spectral analysis temporal basis functions and spatial basis functions derived from the kernel method applied to a co-registered T1-weighted magnetic resonance (MR) image. The dynamic PET image is modelled as a linear combination of spatial and temporal basis functions, and a maximum likelihood estimate for the coefficients can be found using the expectation-maximization (EM) algorithm. Following reconstruction, kinetic fitting using any temporal model of interest can be applied. Based on a BrainWeb T1-weighted MR phantom, we performed a realistic dynamic [18F]FDG simulation study with two noise levels, and investigated the quantitative performance of the proposed reconstruction algorithm, comparing it with reconstructions incorporating either spectral analysis temporal basis functions alone or kernel spatial basis functions alone, as well as with conventional frame-independent reconstruction. Compared to the other reconstruction algorithms, the proposed algorithm achieved superior performance, offering a decrease in spatially averaged pixel-level root-mean-square-error on post-reconstruction kinetic parametric maps in the grey/white matter, as well as in the tumours when they were present on the co-registered MR image. When the tumours were not visible in the MR image, reconstruction with the proposed algorithm performed similarly to reconstruction with spectral temporal basis functions and was superior to both conventional frame-independent reconstruction and frame-independent reconstruction with kernel spatial basis functions. Furthermore, we demonstrate that a joint spectral
MR-guided dynamic PET reconstruction with the kernel method and spectral temporal basis functions.
Novosad, Philip; Reader, Andrew J
2016-06-21
Recent advances in dynamic positron emission tomography (PET) reconstruction have demonstrated that it is possible to achieve markedly improved end-point kinetic parameter maps by incorporating a temporal model of the radiotracer directly into the reconstruction algorithm. In this work we have developed a highly constrained, fully dynamic PET reconstruction algorithm incorporating both spectral analysis temporal basis functions and spatial basis functions derived from the kernel method applied to a co-registered T1-weighted magnetic resonance (MR) image. The dynamic PET image is modelled as a linear combination of spatial and temporal basis functions, and a maximum likelihood estimate for the coefficients can be found using the expectation-maximization (EM) algorithm. Following reconstruction, kinetic fitting using any temporal model of interest can be applied. Based on a BrainWeb T1-weighted MR phantom, we performed a realistic dynamic [(18)F]FDG simulation study with two noise levels, and investigated the quantitative performance of the proposed reconstruction algorithm, comparing it with reconstructions incorporating either spectral analysis temporal basis functions alone or kernel spatial basis functions alone, as well as with conventional frame-independent reconstruction. Compared to the other reconstruction algorithms, the proposed algorithm achieved superior performance, offering a decrease in spatially averaged pixel-level root-mean-square-error on post-reconstruction kinetic parametric maps in the grey/white matter, as well as in the tumours when they were present on the co-registered MR image. When the tumours were not visible in the MR image, reconstruction with the proposed algorithm performed similarly to reconstruction with spectral temporal basis functions and was superior to both conventional frame-independent reconstruction and frame-independent reconstruction with kernel spatial basis functions. Furthermore, we demonstrate that a joint spectral
Inflationary dynamics reconstruction via inverse-scattering theory
NASA Astrophysics Data System (ADS)
Mastache, Jorge; Zago, Fernando; Kosowsky, Arthur
2017-03-01
The evolution of inflationary fluctuations can be recast as an inverse scattering problem. In this context, we employ the Gel'fand-Levitan method from inverse-scattering theory to reconstruct the evolution of both the inflaton field freeze-out horizon and the Hubble parameter during inflation. We demonstrate this reconstruction procedure numerically for a scenario of slow-roll inflation, as well as for a scenario which temporarily departs from slow-roll. The field freeze-out horizon is reconstructed from the accessible primordial scalar power spectrum alone, while the reconstruction of the Hubble parameter requires additional information from the tensor power spectrum. We briefly discuss the application of this technique to more realistic cases incorporating estimates of the primordial power spectra over limited ranges of scales and with specified uncertainties.
A test of improved force field parameters for urea: molecular-dynamics simulations of urea crystals.
Özpınar, Gül Altınbaş; Beierlein, Frank R; Peukert, Wolfgang; Zahn, Dirk; Clark, Timothy
2012-08-01
Molecular-dynamics (MD) simulations of urea crystals of different shapes (cubic, rectangular prismatic, and sheet) have been performed using our previously published force field for urea. This force field has been validated by calculating values for the cohesive energy, sublimation temperature, and melting point from the MD data. The cohesive energies computed from simulations of cubic and rectangular prismatic urea crystals in vacuo at 300 K agreed very well with the experimental sublimation enthalpies reported at 298 K. We also found very good agreement between the melting points as observed experimentally and from simulations. Annealing the crystals just below the melting point leads to reconstruction to form crystal faces that are consistent with experimental observations. The simulations reveal a melting mechanism that involves surface (corner/edge) melting well below the melting point, and rotational disordering of the urea molecules in the corner/edge regions of the crystal, which then facilitates the translational motion of these molecules.
NASA Astrophysics Data System (ADS)
Zhu, Dianwen; Zhang, Wei; Zhao, Yue; Li, Changqing
2016-03-01
Dynamic fluorescence molecular tomography (FMT) has the potential to quantify physiological or biochemical information, known as pharmacokinetic parameters, which are important for cancer detection, drug development and delivery etc. To image those parameters, there are indirect methods, which are easier to implement but tend to provide images with low signal-to-noise ratio, and direct methods, which model all the measurement noises together and are statistically more efficient. The direct reconstruction methods in dynamic FMT have attracted a lot of attention recently. However, the coupling of tomographic image reconstruction and nonlinearity of kinetic parameter estimation due to the compartment modeling has imposed a huge computational burden to the direct reconstruction of the kinetic parameters. In this paper, we propose to take advantage of both the direct and indirect reconstruction ideas through a variable splitting strategy under the augmented Lagrangian framework. Each iteration of the direct reconstruction is split into two steps: the dynamic FMT image reconstruction and the node-wise nonlinear least squares fitting of the pharmacokinetic parameter images. Through numerical simulation studies, we have found that the proposed algorithm can achieve good reconstruction results within a small amount of time. This will be the first step for a combined dynamic PET and FMT imaging in the future.
NASA Astrophysics Data System (ADS)
Okada, Akinori; Mizutani, Yusuke; Subagyo, Agus; Hosoi, Hirotaka; Nakamura, Motonori; Sueoka, Kazuhisa; Kawahara, Koichi; Okajima, Takaharu
2011-12-01
We investigated dynamic force propagation between focal adhesions of fibroblast cells cultured on polydimethylsiloxane micropost substrates, by atomic force microscopy. Live cells were mechanically modulated by the atomic force microscopy probe bound to cell apical surfaces at 0.01-0.5 Hz, while microposts served as a force sensor at basal surfaces. We observed that cells exhibited rheological behavior at the apical surface but had no apparent out-of-phase response at the basal surface, indicating that the dynamic force propagating through cytoskeletal filaments behaves in an elastic manner. Moreover, the direction of the propagated force was observed to be intimately associated with the prestress.
Dynamic stability of repulsive-force maglev suspension systems
Cai, Y.; Rote, D.M.; Mulcahy, T.M.; Wang, Z.
1996-11-01
This report summarizes the research performed on maglev vehicle dynamic stability at Argonne National Laboratory during the past few years. It also documents both measured and calculated magnetic-force data. Because dynamic instability is not acceptable for any commercial maglev system, it is important to consider this phenomenon in the development of all maglev systems. This report presents dynamic stability experiments on maglev systems and compares the results with predictions calculated by a nonlinear-dynamics computer code. Instabilities of an electrodynamic-suspension system type vehicle model were obtained by experimental observation and computer simulation of a five-degree-of-freedom maglev vehicle moving on a guideway that consists of a pair of L-shaped aluminum conductors attached to a rotating wheel. The experimental and theoretical analyses developed in this study identify basic stability characteristics and future research needs of maglev systems.
Borysov, Stanislav S.; Forchheimer, Daniel; Haviland, David B.
2014-10-29
Here we present a theoretical framework for the dynamic calibration of the higher eigenmode parameters (stiffness and optical lever inverse responsivity) of a cantilever. The method is based on the tip–surface force reconstruction technique and does not require any prior knowledge of the eigenmode shape or the particular form of the tip–surface interaction. The calibration method proposed requires a single-point force measurement by using a multimodal drive and its accuracy is independent of the unknown physical amplitude of a higher eigenmode.
Borysov, Stanislav S; Forchheimer, Daniel; Haviland, David B
2014-01-01
We present a theoretical framework for the dynamic calibration of the higher eigenmode parameters (stiffness and optical lever inverse responsivity) of a cantilever. The method is based on the tip-surface force reconstruction technique and does not require any prior knowledge of the eigenmode shape or the particular form of the tip-surface interaction. The calibration method proposed requires a single-point force measurement by using a multimodal drive and its accuracy is independent of the unknown physical amplitude of a higher eigenmode.
Forchheimer, Daniel; Haviland, David B
2014-01-01
Summary We present a theoretical framework for the dynamic calibration of the higher eigenmode parameters (stiffness and optical lever inverse responsivity) of a cantilever. The method is based on the tip–surface force reconstruction technique and does not require any prior knowledge of the eigenmode shape or the particular form of the tip–surface interaction. The calibration method proposed requires a single-point force measurement by using a multimodal drive and its accuracy is independent of the unknown physical amplitude of a higher eigenmode. PMID:25383301
Dynamic force balances and cell shape changes during cytokinesis.
Sain, Anirban; Inamdar, Mandar M; Jülicher, Frank
2015-01-30
During the division of animal cells, an actomyosin ring is formed in the cell cortex. The contraction of this ring induces shape changes of the cell and the formation of a cytokinesis furrow. In many cases, a cell-cell interface forms that separates the two new cells. Here we present a simple physical description of the cell shape changes and the dynamics of the interface closure, based on force balances involving active stresses and viscous friction. We discuss conditions in which the interface closure is either axially symmetric or asymmetric. We show that our model can account for the observed dynamics of ring contraction and interface closure in the C. elegans embryo.
Evaluation of the sensing block method for dynamic force measurement
NASA Astrophysics Data System (ADS)
Zhang, Qinghui; Chen, Hao; Li, Wenzhao; Song, Li
2017-01-01
Sensing block method was proposed for the dynamic force measurement by Tanimura et al. in 1994. Comparing with the Split Hopkinson pressure bar (SHPB) technique, it can provide a much longer measuring time for the dynamic properties test of materials. However, the signals recorded by sensing block are always accompanied with additional oscillations. Tanimura et al. discussed the effect of force rising edge on the test results, whereas more research is still needed. In this paper, some more dominant factors have been extracted through dimensional analysis. The finite element simulation has been performed to assess these factors. Base on the analysis and simulation, some valuable results are obtained and some criterions proposed in this paper can be applied in design or selection of the sensing block.
[Tension force in dynamic splints made of neoprene].
Punsola-Izard, V; Rouzaud, J C; Thomas, D; Lluch; Garcia-Elias
2001-06-01
Dynamic splints are the most difficult ortheses to make. Unrestricted finger joint mobility is usually prevented by the size of their components. Ortheses made out of neoprene material have the advantage of being pliable and at the same time can be constructed as dynamic splints. Neoprene material elasticity allows conforming it into a tube that can be fitted over a finger, spreading uniform pressure. A traction slip can be cemented to the neoprene finger tube. With neoprene splints, lever arms are more efficient. Their tubular design applies and spreads traction and countertraction forces in all directions. Neoprene material's elasticity contributes in reducing edema formation as well as distributes forces applied to the finger over a large area. The risk of excessive pressure is the only drawback of an elastic tubular design, it may cause pain and tissue ischemia. A meticulous tailoring prevents this potential risk.
Effects of Intermediate Bound States in Dynamic Force Spectroscopy
Derényi, Imre; Bartolo, Denis; Ajdari, Armand
2004-01-01
We revisit some aspects of the interpretation of dynamic force spectroscopy experiments. The standard theory predicts that the typical unbinding force f* is linearly proportional to the logarithm of the loading rate r when a single energy barrier controls the unbinding process. For a more complex situation of N barriers, it predicts at most N linear segments for the f* vs. log(r) curve, each segment characterizing a different barrier. Here we extend this existing picture using a refined approximation, provide a more general analytical formula, and show that in principle up to N(N + 1) / 2 segments can show up experimentally. As a consequence, the determination of the positions and even the number of the energy barriers from the experimental data can be ambiguous. A further possible consequence of a multiple-barrier landscape is a bimodal or multimodal distribution of the unbinding force at certain loading rates, a feature recently observed experimentally. PMID:14990459
Effect of nonharmonic forcing on bluff-body vortex dynamics.
Konstantinidis, E; Bouris, D
2009-04-01
Forced nonharmonic excitation of the two-dimensional flow about a circular cylinder is studied by numerical simulations at mean Reynolds numbers of 180 and 150. Moderate deviations of the forced inflow velocity waveform from a pure harmonic generate different modes of phase-locked vortex formation in the cylinder wake, involving combinations of single and/or pairs of vortices for the same forcing frequency and peak-to-peak amplitude. The dynamical response of the wake oscillator is studied by employing phase portraits of the drag and lift coefficients that display modified limit-cycle behavior due to nonharmonic excitation. It is further shown that changing solely the velocity waveform can incite transition from a quasiperiodic state to a phase-locked state. The findings demonstrate that the wake oscillator is admissible to an infinite number of phase-locked and/or modulated states characterized by a single point on the frequency-amplitude plane.
A CLASS OF RECONSTRUCTED DISCONTINUOUS GALERKIN METHODS IN COMPUTATIONAL FLUID DYNAMICS
Hong Luo; Yidong Xia; Robert Nourgaliev
2011-05-01
A class of reconstructed discontinuous Galerkin (DG) methods is presented to solve compressible flow problems on arbitrary grids. The idea is to combine the efficiency of the reconstruction methods in finite volume methods and the accuracy of the DG methods to obtain a better numerical algorithm in computational fluid dynamics. The beauty of the resulting reconstructed discontinuous Galerkin (RDG) methods is that they provide a unified formulation for both finite volume and DG methods, and contain both classical finite volume and standard DG methods as two special cases of the RDG methods, and thus allow for a direct efficiency comparison. Both Green-Gauss and least-squares reconstruction methods and a least-squares recovery method are presented to obtain a quadratic polynomial representation of the underlying linear discontinuous Galerkin solution on each cell via a so-called in-cell reconstruction process. The devised in-cell reconstruction is aimed to augment the accuracy of the discontinuous Galerkin method by increasing the order of the underlying polynomial solution. These three reconstructed discontinuous Galerkin methods are used to compute a variety of compressible flow problems on arbitrary meshes to assess their accuracy. The numerical experiments demonstrate that all three reconstructed discontinuous Galerkin methods can significantly improve the accuracy of the underlying second-order DG method, although the least-squares reconstructed DG method provides the best performance in terms of both accuracy, efficiency, and robustness.
Langevin Dynamics with Space-Time Periodic Nonequilibrium Forcing
NASA Astrophysics Data System (ADS)
Joubaud, R.; Pavliotis, G. A.; Stoltz, G.
2015-01-01
We present results on the ballistic and diffusive behavior of the Langevin dynamics in a periodic potential that is driven away from equilibrium by a space-time periodic driving force, extending some of the results obtained by Collet and Martinez in (J Math Biol, 56(6):765-792 2008). In the hyperbolic scaling, a nontrivial average velocity can be observed even if the external forcing vanishes in average. More surprisingly, an average velocity in the direction opposite to the forcing may develop at the linear response level—a phenomenon called negative mobility. The diffusive limit of the non-equilibrium Langevin dynamics is also studied using the general methodology of central limit theorems for additive functionals of Markov processes. To apply this methodology, which is based on the study of appropriate Poisson equations, we extend recent results on pointwise estimates of the resolvent of the generator associated with the Langevin dynamics. Our theoretical results are illustrated by numerical simulations of a two-dimensional system.
Subharmonic Oscillations and Chaos in Dynamic Atomic Force Microscopy
NASA Technical Reports Server (NTRS)
Cantrell, John H.; Cantrell, Sean A.
2015-01-01
The increasing use of dynamic atomic force microscopy (d-AFM) for nanoscale materials characterization calls for a deeper understanding of the cantilever dynamics influencing scan stability, predictability, and image quality. Model development is critical to such understanding. Renormalization of the equations governing d- AFM provides a simple interpretation of cantilever dynamics as a single spring and mass system with frequency dependent cantilever stiffness and damping parameters. The renormalized model is sufficiently robust to predict the experimentally observed splitting of the free-space cantilever resonance into multiple resonances upon cantilever-sample contact. Central to the model is the representation of the cantilever sample interaction force as a polynomial expansion with coefficients F(sub ij) (i,j = 0, 1, 2) that account for the effective interaction stiffness parameter, the cantilever-to-sample energy transfer, and the amplitude of cantilever oscillation. Application of the Melnikov method to the model equation is shown to predict a homoclinic bifurcation of the Smale horseshoe type leading to a cascade of period doublings with increasing drive displacement amplitude culminating in chaos and loss of image quality. The threshold value of the drive displacement amplitude necessary to initiate subharmonic generation depends on the acoustic drive frequency, the effective damping coefficient, and the nonlinearity of the cantilever-sample interaction force. For parameter values leading to displacement amplitudes below threshold for homoclinic bifurcation other bifurcation scenarios can occur, some of which lead to chaos.
Dynamic force spectroscopy of parallel individual mucin1-antibody bonds
Sulchek, T A; Friddle, R W; Langry, K; Lau, E; Albrecht, H; Ratto, T; DeNardo, S; Colvin, M E; Noy, A
2005-05-02
We used atomic force microscopy (AFM) to measure the binding forces between Mucin1 (MUC1) peptide and a single chain antibody fragment (scFv) selected from a scFv library screened against MUC1. This binding interaction is central to the design of the molecules for targeted delivery of radioimmunotherapeutic agents for prostate and breast cancer treatment. Our experiments separated the specific binding interaction from non-specific interactions by tethering the antibody and MUC1 molecules to the AFM tip and sample surface with flexible polymer spacers. Rupture force magnitude and elastic characteristics of the spacers allowed identification of the bond rupture events corresponding to different number of interacting proteins. We used dynamic force spectroscopy to estimate the intermolecular potential widths and equivalent thermodynamic off rates for mono-, bi-, and tri-valent interactions. Measured interaction potential parameters agree with the results of molecular docking simulation. Our results demonstrate that an increase of the interaction valency leads to a precipitous decline in the dissociation rate. Binding forces measured for mono and multivalent interactions match the predictions of a Markovian model for the strength of multiple uncorrelated bonds in parallel configuration. Our approach is promising for comparison of the specific effects of molecular modifications as well as for determination of the best configuration of antibody-based multivalent targeting agents.
Dynamic Response of Model Lipid Membranes to Ultrasonic Radiation Force
Prieto, Martin Loynaz; Oralkan, Ömer; Khuri-Yakub, Butrus T.; Maduke, Merritt C.
2013-01-01
Low-intensity ultrasound can modulate action potential firing in neurons in vitro and in vivo. It has been suggested that this effect is mediated by mechanical interactions of ultrasound with neural cell membranes. We investigated whether these proposed interactions could be reproduced for further study in a synthetic lipid bilayer system. We measured the response of protein-free model membranes to low-intensity ultrasound using electrophysiology and laser Doppler vibrometry. We find that ultrasonic radiation force causes oscillation and displacement of lipid membranes, resulting in small (<1%) changes in membrane area and capacitance. Under voltage-clamp, the changes in capacitance manifest as capacitive currents with an exponentially decaying sinusoidal time course. The membrane oscillation can be modeled as a fluid dynamic response to a step change in pressure caused by ultrasonic radiation force, which disrupts the balance of forces between bilayer tension and hydrostatic pressure. We also investigated the origin of the radiation force acting on the bilayer. Part of the radiation force results from the reflection of the ultrasound from the solution/air interface above the bilayer (an effect that is specific to our experimental configuration) but part appears to reflect a direct interaction of ultrasound with the bilayer, related to either acoustic streaming or scattering of sound by the bilayer. Based on these results, we conclude that synthetic lipid bilayers can be used to study the effects of ultrasound on cell membranes and membrane proteins. PMID:24194863
Kiran, Kopuri Ravi; Srikanth, I Muni; Chinnusamy, Lenin; Deepti, K
2015-01-01
The medial patellofemoral ligament (MPFL) is the primary stabilizer of the patellofemoral joint; its reconstruction has been recommended in adults over the past decade after recurrent patellar instability. However, there has been no standardized technique for reconstruction, therefore, ideal graft and technique for reconstruction are yet undetermined. However, dynamic MPFL reconstruction studies claim to be superior to other procedures as it is more anatomical. This preliminary study aims at assessing the outcomes of MPFL reconstruction in a dynamic pattern using hamstring graft. We performed this procedure in four consecutive patients with chronic patellar instability following trauma. MPFL reconstruction was done with hamstring tendons detached distally and secured to patellar periosteum after being passed through a bony tunnel in the patella without an implant and using the medial collateral ligament as a pulley. In all 4 knees, the MPFL reconstruction was isolated and was not associated with any other realignment procedures. No recurrent episodes of dislocation or subluxation were reported at 24 months followup. PMID:26806970
Dynamic force and moment coefficients for short length annular seals
NASA Astrophysics Data System (ADS)
San Andres, Luis
1993-01-01
Close form expressions for the dynamic force and moment coefficients in short length annular pressure seals operating at the concentric and aligned position are derived. The analysis considers fully developed turbulent flow within the seal and determines a set of ordinary differential equations for the bulk-flow field due to perturbations in rotor displacements and angular motions. The flow equations are solved exactly for seals of short length where dynamic variations in circumferential velocity are neglected. The analytical solution derived is simple and reasonably accurate for seals of length to diameter ratios (L/D) as large as 0.5 as comparisons with results from full-scale numerical solutions show. The formulae presented are practical for use in preliminary design stages and parametric studies of dynamic seal performance.
NASA Astrophysics Data System (ADS)
Davtyan, Aram; Voth, Gregory A.; Andersen, Hans C.
2016-12-01
We recently developed a dynamic force matching technique for converting a coarse-grained (CG) model of a molecular system, with a CG potential energy function, into a dynamic CG model with realistic dynamics [A. Davtyan et al., J. Chem. Phys. 142, 154104 (2015)]. This is done by supplementing the model with additional degrees of freedom, called "fictitious particles." In that paper, we tested the method on CG models in which each molecule is coarse-grained into one CG point particle, with very satisfactory results. When the method was applied to a CG model of methanol that has two CG point particles per molecule, the results were encouraging but clearly required improvement. In this paper, we introduce a new type (called type-3) of fictitious particle that exerts forces on the center of mass of two CG sites. A CG model constructed using type-3 fictitious particles (as well as type-2 particles previously used) gives a much more satisfactory dynamic model for liquid methanol. In particular, we were able to construct a CG model that has the same self-diffusion coefficient and the same rotational relaxation time as an all-atom model of liquid methanol. Type-3 particles and generalizations of it are likely to be useful in converting more complicated CG models into dynamic CG models.
3.5D dynamic PET image reconstruction incorporating kinetics-based clusters
Lu, Lijun; Karakatsanis, Nicolas A.; Tang, Jing; Chen, Wufan; Rahmim, Arman
2012-01-01
Standard 3D dynamic PET imaging consists of independent image reconstructions of individual frames followed by application of appropriate kinetic model to the time activity curves (TACs) at the voxel or region-of-interest. The emerging field of 4D PET reconstruction, by contrast, seeks to move beyond this scheme and incorporate information from multiple frames within the image reconstruction task. Here we propose a novel reconstruction framework aiming to enhance quantitative accuracy of parametric images via introduction of priors based on voxel kinetics, as generated via clustering of preliminary reconstructed dynamic images to define clustered neighborhoods of voxels with similar kinetics. This is then followed by straightforward maximum a posterior (MAP) 3D PET reconstruction as applied to individual frames; and as such the method is labeled “3.5D” image reconstruction. The use of cluster-based priors has the advantage of further enhancing quantitative performance in dynamic PET imaging, because: (a) there are typically more voxels in clusters than in conventional local neighborhoods, and (b) neighboring voxels with distinct kinetics are less likely to be clustered together. Using realistic simulated 11C-raclopride dynamic PET data, the quantitative performance of the proposed method was investigated. Parametric distribution-volume (DV) and DV ratio (DVR) images were estimated from dynamic image reconstructions using (a) MLEM, and MAP reconstructions using (b) the quadratic prior (QP-MAP), (c) the Green prior (GP-MAP) and (d, e) two proposed cluster-based priors (CP-U-MAP and CP-W-MAP), followed by graphical modeling, and were qualitatively and quantitatively compared for 11 regions-of-interest (ROIs). Overall, the proposed dynamic PET reconstruction methodology resulted in substantial visual as well as quantitative accuracy improvements (in terms of noise vs. bias performance) for parametric DV and DVR images. The method was also tested on a 90 min 11C
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
A Minimum Fuel Based Estimator for Maneuver and Natrual Dynamics Reconstruction
NASA Astrophysics Data System (ADS)
Lubey, D.; Scheeres, D.
2013-09-01
The vast and growing population of objects in Earth orbit (active and defunct spacecraft, orbital debris, etc.) offers many unique challenges when it comes to tracking these objects and associating the resulting observations. Complicating these challenges are the inaccurate natural dynamical models of these objects, the active maneuvers of spacecraft that deviate them from their ballistic trajectories, and the fact that spacecraft are tracked and operated by separate agencies. Maneuver detection and reconstruction algorithms can help with each of these issues by estimating mismodeled and unmodeled dynamics through indirect observation of spacecraft. It also helps to verify the associations made by an object correlation algorithm or aid in making those associations, which is essential when tracking objects in orbit. The algorithm developed in this study applies an Optimal Control Problem (OCP) Distance Metric approach to the problems of Maneuver Reconstruction and Dynamics Estimation. This was first developed by Holzinger, Scheeres, and Alfriend (2011), with a subsequent study by Singh, Horwood, and Poore (2012). This method estimates the minimum fuel control policy rather than the state as a typical Kalman Filter would. This difference ensures that the states are connected through a given dynamical model and allows for automatic covariance manipulation, which can help to prevent filter saturation. Using a string of measurements (either verified or hypothesized to correlate with one another), the algorithm outputs a corresponding string of adjoint and state estimates with associated noise. Post-processing techniques are implemented, which when applied to the adjoint estimates can remove noise and expose unmodeled maneuvers and mismodeled natural dynamics. Specifically, the estimated controls are used to determine spacecraft dependent accelerations (atmospheric drag and solar radiation pressure) using an adapted form of the Optimal Control based natural dynamics
Holocene carbon dynamics and radiative forcing of three different types of peatlands in Finland
NASA Astrophysics Data System (ADS)
Mathijssen, Paul; Väliranta, Minna; Lohila, Annalea; Minkkinen, Kari; Tuittila, Eeva-Stiina; Tuovinen, Juha-Pekka; Korrensalo, Aino
2016-04-01
Peatlands contain approximately a third of all soil carbon globally and as they exchange carbon dioxide (CO2) and methane (CH4) copiously with the atmosphere, changes in peatland carbon budgets have a large impact on the global carbon balance and the concentration of greenhouse gasses in the atmosphere. There has been a growing interest in reconstructing and linking peatland carbon dynamics to past climate variations, because quantitative reconstructions can be used as a basis for future carbon balance predictions. In order to increase our understanding on peatland development and response patterns we quantitatively reconstructed Holocene carbon dynamics of three different peatlands in Finland: a subarctic fen, a boreal peatland complex and a boreal managed pine bog. Several cores from each peatland were investigated. The peatlands showed distinct successional pathways, which were sometimes triggered by fires. Successional stages were partly reflected in carbon accumulation patterns. Sometimes variations in carbon accumulation rates coincided with autogenic changes in peat type and vegetation, but accumulation rates were also related to the large-scale Holocene climate phases. However, Holocene climate changes as such did not seem to result in changes in the peat plant species composition. The mid-Holocene warm and dry climate conditions reduced the carbon accumulation in the subarctic fen and in the fen part of the boreal peatland complex, but when the peatland was in bog phase this effect was not visible. Some bog cores showed a clear increase in carbon accumulation after fen-bog transition, but the pattern was not unanimous. In addition to carbon accumulation, we estimated past CH4 emissions for each peatland respectively by applying different methods and by utilising the established current vegetation-CH4 emission relationship. The reconstructions showed that CH4 emissions always decreased during bog stages, but that the CH4 emissions played a major role in the
Reconstruction of dark energy and expansion dynamics using Gaussian processes
Seikel, Marina; Clarkson, Chris; Smith, Mathew E-mail: chris.clarkson@uct.ac.za
2012-06-01
An important issue in cosmology is reconstructing the effective dark energy equation of state directly from observations. With few physically motivated models, future dark energy studies cannot only be based on constraining a dark energy parameter space, as the errors found depend strongly on the parametrisation considered. We present a new non-parametric approach to reconstructing the history of the expansion rate and dark energy using Gaussian Processes, which is a fully Bayesian approach for smoothing data. We present a pedagogical introduction to Gaussian Processes, and discuss how it can be used to robustly differentiate data in a suitable way. Using this method we show that the Dark Energy Survey - Supernova Survey (DES) can accurately recover a slowly evolving equation of state to σ{sub w} = ±0.05 (95% CL) at z = 0 and ±0.25 at z = 0.7, with a minimum error of ±0.025 at the sweet-spot at z ∼ 0.16, provided the other parameters of the model are known. Errors on the expansion history are an order of magnitude smaller, yet make no assumptions about dark energy whatsoever. A code for calculating functions and their first three derivatives using Gaussian processes has been developed and is available for download.
Dynamic behavior of a beam drag-force anemometer
NASA Technical Reports Server (NTRS)
Fralick, G. C.
1980-01-01
A cantilevered beam with strain gages attached to the fixed ends and the minimax technique were used in an experiment conducted to determine the dynamic behavior of a drag-force anemometer in high frequency, unsteady flow. In steady flow the output of the anemometer is proportional to stream velocity head and flow angle. Fluid mechanics suggests that, in unsteady flow, the output would also be proportional to the rate of change of fluid velocity. It was determined that effects due to the rate of change of fluid velocity are negligible for the probe geometry and frequencies involved.
A stochastic boundary forcing for dissipative particle dynamics
NASA Astrophysics Data System (ADS)
Altenhoff, Adrian M.; Walther, Jens H.; Koumoutsakos, Petros
2007-07-01
The method of dissipative particle dynamics (DPD) is an effective, coarse grained model of the hydrodynamics of complex fluids. DPD simulations of wall-bounded flows are however often associated with spurious fluctuations of the fluid properties near the wall. We present a novel stochastic boundary forcing for DPD simulations of wall-bounded flows, based on the identification of fluctuations in simulations of the corresponding homogeneous system at equilibrium. The present method is shown to enforce accurately the no-slip boundary condition, while minimizing spurious fluctuations of material properties, in a number of benchmark problems.
Magnetostriction-driven cantilevers for dynamic atomic force microscopy
NASA Astrophysics Data System (ADS)
Penedo, M.; Fernández-Martínez, I.; Costa-Krämer, J. L.; Luna, M.; Briones, F.
2009-10-01
An actuation mode is presented to drive the mechanical oscillation of cantilevers for dynamic atomic force microscopy. The method is based on direct mechanical excitation of the cantilevers coated with amorphous Fe-B-N thin films, by means of the film magnetostriction, i.e., the dimensional change in the film when magnetized. These amorphous magnetostrictive Fe-B-N thin films exhibit soft magnetic properties, excellent corrosion resistance in liquid environments, nearly zero accumulated stress when properly deposited, and good chemical stability. We present low noise and high resolution topographic images acquired in liquid environment to demonstrate the method capability.
Molecular Dynamics Simulation of Nitrobenzene Dioxygenase Using AMBER Force Field
2015-01-01
Molecular dynamics simulation of the oxygenase component of nitrobenzene dioxygenase (NBDO) system, a member of the naphthalene family of Rieske nonheme iron dioxygenases, has been carried out using the AMBER force field combined with a new set of parameters for the description of the mononuclear nonheme iron center and iron–sulfur Rieske cluster. Simulation results provide information on the structure and dynamics of nitrobenzene dioxygenase in an aqueous environment and shed light on specific interactions that occur in its catalytic center. The results suggest that the architecture of the active site is stabilized by key hydrogen bonds, and Asn258 positions the substrate for oxidation. Analysis of protein–water interactions reveal the presence of a network of solvent molecules at the entrance to the active site, which could be of potential catalytic importance. PMID:24955078
NASA Astrophysics Data System (ADS)
Kubík, M.; Macháček, O.; Strecker, Z.; Roupec, J.; Mazůrek, I.
2017-04-01
The paper deals with design, simulation and experimental testing of a magnetorheological (MR) valve with short response time. The short response time is achieved by a suitable design of an active zone in combination with use of a ferrite material for magnetic circuit. The magneto-static model and the simplified hydraulic model of the MR valve are examined and experimentally verified. The development the MR valve achieves an average response time 4.1 ms and the maximum dynamic force range of eight.
Replicator dynamics with alternate growth functions, delay, and quasiperiodic forcing
NASA Astrophysics Data System (ADS)
Wesson, Elizabeth Nicholas
Evolutionary dynamics combines game theory and nonlinear dynamics to model competition in biological and social situations. The replicator equation is a standard paradigm in evolutionary dynamics. The growth rate of each strategy is its excess fitness: the deviation of its fitness from the average. The gametheoretic aspect of the model lies in the choice of fitness function, which is determined by a payoff matrix. Two well-known replicator systems are the threestrategy Rock-Paper-Scissors game and the two-strategy Hawk-Dove game. In this work, we analyze the dynamics of replicator systems with three different types of modifications. The first generalization of the replicator model is given by considering alternate growth functions. We find that in the Rock-Paper-Scissors game with a logistic growth function, there are several fixed points that do not exist in the standard replicator model. The system exhibits both periodic motion and convergence to attractors. We also analyze replicator systems with delayed interactions between strategies. We consider a symmetric delay model, in which the fitness of each strategy is its expected payoff delayed by a time interval; and an asymmetric model, in which same-strategy terms appearing in the fitness of a given strategy are not delayed. In both cases, limit cycles arise that cannot occur in the usual replicator model. Finally, we examine Rock-Paper-Scissors systems with quasiperiodic forcing of the payoff coefficients. This model may represent systems in which the competition is affected by cyclical processes on different time-scales. We find that the stability of the equilibrium state depends sensitively on the two forcing frequencies; in fact, the region of stability has fractal boundary.
NASA Astrophysics Data System (ADS)
Tremblay, Benoit; Vincent, Alain
2017-01-01
We present a generalization of the resistive minimum-energy fit (MEF-R: Tremblay and Vincent, Solar Phys. 290, 437,
Bayer patterned high dynamic range image reconstruction using adaptive weighting function
NASA Astrophysics Data System (ADS)
Kang, Hee; Lee, Suk Ho; Song, Ki Sun; Kang, Moon Gi
2014-12-01
It is not easy to acquire a desired high dynamic range (HDR) image directly from a camera due to the limited dynamic range of most image sensors. Therefore, generally, a post-process called HDR image reconstruction is used, which reconstructs an HDR image from a set of differently exposed images to overcome the limited dynamic range. However, conventional HDR image reconstruction methods suffer from noise factors and ghost artifacts. This is due to the fact that the input images taken with a short exposure time contain much noise in the dark regions, which contributes to increased noise in the corresponding dark regions of the reconstructed HDR image. Furthermore, since input images are acquired at different times, the images contain different motion information, which results in ghost artifacts. In this paper, we propose an HDR image reconstruction method which reduces the impact of the noise factors and prevents ghost artifacts. To reduce the influence of the noise factors, the weighting function, which determines the contribution of a certain input image to the reconstructed HDR image, is designed to adapt to the exposure time and local motions. Furthermore, the weighting function is designed to exclude ghosting regions by considering the differences of the luminance and the chrominance values between several input images. Unlike conventional methods, which generally work on a color image processed by the image processing module (IPM), the proposed method works directly on the Bayer raw image. This allows for a linear camera response function and also improves the efficiency in hardware implementation. Experimental results show that the proposed method can reconstruct high-quality Bayer patterned HDR images while being robust against ghost artifacts and noise factors.
Adaptive pulsed laser line extraction for terrain reconstruction using a dynamic vision sensor
Brandli, Christian; Mantel, Thomas A.; Hutter, Marco; Höpflinger, Markus A.; Berner, Raphael; Siegwart, Roland; Delbruck, Tobi
2014-01-01
Mobile robots need to know the terrain in which they are moving for path planning and obstacle avoidance. This paper proposes the combination of a bio-inspired, redundancy-suppressing dynamic vision sensor (DVS) with a pulsed line laser to allow fast terrain reconstruction. A stable laser stripe extraction is achieved by exploiting the sensor's ability to capture the temporal dynamics in a scene. An adaptive temporal filter for the sensor output allows a reliable reconstruction of 3D terrain surfaces. Laser stripe extractions up to pulsing frequencies of 500 Hz were achieved using a line laser of 3 mW at a distance of 45 cm using an event-based algorithm that exploits the sparseness of the sensor output. As a proof of concept, unstructured rapid prototype terrain samples have been successfully reconstructed with an accuracy of 2 mm. PMID:24478619
Adaptive pulsed laser line extraction for terrain reconstruction using a dynamic vision sensor.
Brandli, Christian; Mantel, Thomas A; Hutter, Marco; Höpflinger, Markus A; Berner, Raphael; Siegwart, Roland; Delbruck, Tobi
2013-01-01
Mobile robots need to know the terrain in which they are moving for path planning and obstacle avoidance. This paper proposes the combination of a bio-inspired, redundancy-suppressing dynamic vision sensor (DVS) with a pulsed line laser to allow fast terrain reconstruction. A stable laser stripe extraction is achieved by exploiting the sensor's ability to capture the temporal dynamics in a scene. An adaptive temporal filter for the sensor output allows a reliable reconstruction of 3D terrain surfaces. Laser stripe extractions up to pulsing frequencies of 500 Hz were achieved using a line laser of 3 mW at a distance of 45 cm using an event-based algorithm that exploits the sparseness of the sensor output. As a proof of concept, unstructured rapid prototype terrain samples have been successfully reconstructed with an accuracy of 2 mm.
NASA Astrophysics Data System (ADS)
Niu, Xiaofeng; Yang, Yongyi; King, Michael A.
2012-09-01
Temporal regularization plays a critical role in cardiac gated dynamic SPECT reconstruction, of which the goal is to obtain an image sequence from a single acquisition which simultaneously shows both cardiac motion and tracer distribution change over the course of imaging (termed 5D). In our recent work, we explored two different approaches for temporal regularization of the dynamic activities in gated dynamic reconstruction without the use of fast camera rotation: one is the dynamic EM (dEM) approach which is imposed on the temporal trend of the time activity of each voxel, and the other is a B-spline modeling approach in which the time activity is regulated by a set of B-spline basis functions. In this work, we extend the B-spline approach to fully 5D reconstruction and conduct a thorough quantitative comparison with the dEM approach. In the evaluation of the reconstruction results, we apply a number of quantitative measures on two major aspects of the reconstructed dynamic images: (1) the accuracy of the reconstructed activity distribution in the myocardium and (2) the ability of the reconstructed dynamic activities to differentiate perfusion defects from normal myocardial wall uptake. These measures include the mean square error (MSE), bias-variance analysis, accuracy of time-activity curves (TAC), contrast-to-noise ratio of a defect, composite kinetic map of the left ventricle wall and perfusion defect detectability with channelized Hotelling observer. In experiments, we simulated cardiac gated imaging with the NURBS-based cardiac-torso phantom and Tc99m-Teboroxime as the imaging agent, where acquisition with the equivalent of only three full camera rotations was used during the imaging period. The results show that both dEM and B-spline 5D could achieve similar overall accuracy in the myocardium in terms of MSE. However, compared to dEM 5D, the B-spline approach could achieve a more accurate reconstruction of the voxel TACs; in particular, B-spline 5D could
Mulligan, Jeffrey A.; Bordeleau, François; Reinhart-King, Cynthia A.; Adie, Steven G.
2017-01-01
Traction force microscopy (TFM) is a method used to study the forces exerted by cells as they sense and interact with their environment. Cell forces play a role in processes that take place over a wide range of spatiotemporal scales, and so it is desirable that TFM makes use of imaging modalities that can effectively capture the dynamics associated with these processes. To date, confocal microscopy has been the imaging modality of choice to perform TFM in 3D settings, although multiple factors limit its spatiotemporal coverage. We propose traction force optical coherence microscopy (TF-OCM) as a novel technique that may offer enhanced spatial coverage and temporal sampling compared to current methods used for volumetric TFM studies. Reconstructed volumetric OCM data sets were used to compute time-lapse extracellular matrix deformations resulting from cell forces in 3D culture. These matrix deformations revealed clear differences that can be attributed to the dynamic forces exerted by normal versus contractility-inhibited NIH-3T3 fibroblasts embedded within 3D Matrigel matrices. Our results are the first step toward the realization of 3D TF-OCM, and they highlight the potential use of OCM as a platform for advancing cell mechanics research. PMID:28271010
Force Generation, Polymerization Dynamics and Nucleation of Actin Filaments
NASA Astrophysics Data System (ADS)
Wang, Ruizhe
We study force generation and actin filament dynamics using stochastic and deterministic methods. First, we treat force generation of bundled actin filaments by polymerization via molecular-level stochastic simulations. In the widely-used Brownian Ratchet model, actin filaments grow freely whenever the tip-obstacle gap created by thermal fluctuation exceeds the monomer size. We name this model the Perfect Brownian Ratchet (PBR) model. In the PBR model, actin monomer diffusion is treated implicitly. We perform a series of simulations based on the PBR, in which obstacle motion is treated explicitly; in most previous studies, obstacle motion has been treated implicitly. We find that the cooperativity of filaments is generally weak in the PBR model, meaning that more filaments would grow more slowly given the same force per filament. Closed-form formulas are also developed, which match the simulation results. These portable and accurate formulas provide guidance for experiments and upper and lower bounds for theoretical analyses. We also studied a variation of the PBR, called the Diffusing Brownian Ratchet (DBR) model, in which both actin monomer and obstacle diffusion are treated explicitly. We find that the growth rate of multiple filaments is even lower, compared with that in PBR. This finding challenges the widely-accepted PBR assumption and suggests that pushing the study of actin dynamics down to the sub-nanometer level yields new insights. We subsequently used a rate equation approach to model the effect of local depletion of actin monomers on the nucleation of actin filaments on biomimetic beads, and how the effect is regulated by capping protein (CP). We find that near the bead surface, a higher CP concentration increases local actin concentration, which leads to an enhanced activities of actin filaments' nucleation. Our model analysis matches the experimental results and lends support to an important but undervalued hypothesis proposed by Carlier and
Rapid 3D dynamic arterial spin labeling with a sparse model-based image reconstruction.
Zhao, Li; Fielden, Samuel W; Feng, Xue; Wintermark, Max; Mugler, John P; Meyer, Craig H
2015-11-01
Dynamic arterial spin labeling (ASL) MRI measures the perfusion bolus at multiple observation times and yields accurate estimates of cerebral blood flow in the presence of variations in arterial transit time. ASL has intrinsically low signal-to-noise ratio (SNR) and is sensitive to motion, so that extensive signal averaging is typically required, leading to long scan times for dynamic ASL. The goal of this study was to develop an accelerated dynamic ASL method with improved SNR and robustness to motion using a model-based image reconstruction that exploits the inherent sparsity of dynamic ASL data. The first component of this method is a single-shot 3D turbo spin echo spiral pulse sequence accelerated using a combination of parallel imaging and compressed sensing. This pulse sequence was then incorporated into a dynamic pseudo continuous ASL acquisition acquired at multiple observation times, and the resulting images were jointly reconstructed enforcing a model of potential perfusion time courses. Performance of the technique was verified using a numerical phantom and it was validated on normal volunteers on a 3-Tesla scanner. In simulation, a spatial sparsity constraint improved SNR and reduced estimation errors. Combined with a model-based sparsity constraint, the proposed method further improved SNR, reduced estimation error and suppressed motion artifacts. Experimentally, the proposed method resulted in significant improvements, with scan times as short as 20s per time point. These results suggest that the model-based image reconstruction enables rapid dynamic ASL with improved accuracy and robustness.
Dynamic Data-Driven Event Reconstruction for Atmospheric Releases
Mirin, A; Serban, R; Kosovic, B
2005-03-14
This is a collaborative LDRD Exploratory Research project involving four directorates--Energy & Environment, Engineering, NAI and Computation. The project seeks to answer the following critical questions regarding atmospheric releases--''How much material was released? When? Where? and What are the potential consequences?'' Inaccurate estimation of the source term can lead to gross errors, time delays during a crisis, and even fatalities. We are developing a capability that seamlessly integrates observational data streams with predictive models in order to provide the best possible estimates of unknown source term parameters, as well as optimal and timely situation analyses consistent with both models and data. Our approach utilizes Bayesian inference and stochastic sampling methods (Markov Chain and Sequential Monte Carlo) to reformulate the inverse problem into a solution based on efficient sampling of an ensemble of predictive simulations, guided by statistical comparisons with data. We are developing a flexible and adaptable data-driven event-reconstruction capability for atmospheric releases that provides (1) quantitative probabilistic estimates of the principal source-term parameters (e.g., the time-varying release rate and location); (2) predictions of increasing fidelity as an event progresses and additional data become available; and (3) analysis tools for sensor network design and uncertainty studies. Our computational framework incorporates multiple stochastic algorithms, operates with a range and variety of atmospheric models, and runs on multiple computer platforms, from workstations to large-scale computing resources. Our final goal is a multi-resolution capability for both real-time operational response and high fidelity multi-scale applications.
Automated Reconstruction of Three-Dimensional Fish Motion, Forces, and Torques
Voesenek, Cees J.; Pieters, Remco P. M.; van Leeuwen, Johan L.
2016-01-01
Fish can move freely through the water column and make complex three-dimensional motions to explore their environment, escape or feed. Nevertheless, the majority of swimming studies is currently limited to two-dimensional analyses. Accurate experimental quantification of changes in body shape, position and orientation (swimming kinematics) in three dimensions is therefore essential to advance biomechanical research of fish swimming. Here, we present a validated method that automatically tracks a swimming fish in three dimensions from multi-camera high-speed video. We use an optimisation procedure to fit a parameterised, morphology-based fish model to each set of video images. This results in a time sequence of position, orientation and body curvature. We post-process this data to derive additional kinematic parameters (e.g. velocities, accelerations) and propose an inverse-dynamics method to compute the resultant forces and torques during swimming. The presented method for quantifying 3D fish motion paves the way for future analyses of swimming biomechanics. PMID:26752597
Gardinier, Emily S.; Di Stasi, Stephanie; Manal, Kurt; Buchanan, Thomas S.; Snyder-Mackler, Lynn
2015-01-01
Background After anterior cruciate ligament (ACL) injury, contact forces are decreased in the injured knee when compared with the uninjured knee. The persistence of contact force asymmetries after ACL reconstruction may increase the risk of reinjury and may play an important role in the development of knee osteoarthritis in these patients. Functional performance may also be useful in identifying patients who demonstrate potentially harmful joint contact force asymmetries after ACL reconstruction. Hypothesis Knee joint contact force asymmetries would be present during gait after ACL reconstruction, and performance on a specific set of validated return-to-sport (RTS) readiness criteria would discriminate between those who demonstrated contact force asymmetries and those who did not. Study Design Descriptive laboratory study. Methods A total of 29 patients with ACL ruptures participated in gait analysis and RTS readiness testing 6 months after reconstruction. Muscle and joint contact forces were estimated using an electromyography (EMG)–driven musculoskeletal model of the knee. The magnitude of typical limb asymmetry in uninjured controls was used to define limits of meaningful limb asymmetry in patients after ACL reconstruction. The RTS testing included isometric quadriceps strength testing, 4 unilateral hop tests, and 2 self-report questionnaires. Paired t tests were used to assess limb symmetry for peak medial and tibiofemoral contact forces in all patients, and a mixed-design analysis of variance was used to analyze the effect of passing or failing RTS testing on contact force asymmetry. Results Among all patients, neither statistically significant nor meaningful contact force asymmetries were identified. However, patients who failed RTS testing exhibited meaningful contact force asymmetries, with tibiofemoral contact force being significantly lower for the involved knee. Conversely, patients who passed RTS testing exhibited neither significant nor meaningful
eVolv2k: A new ice core-based volcanic forcing reconstruction for the past 2000 years
NASA Astrophysics Data System (ADS)
Toohey, Matthew; Sigl, Michael
2016-04-01
Radiative forcing resulting from stratospheric aerosols produced by major volcanic eruptions is a dominant driver of climate variability in the Earth's past. The ability of climate model simulations to accurately recreate past climate is tied directly to the accuracy of the volcanic forcing timeseries used in the simulations. We present here a new volcanic forcing reconstruction, based on newly updated ice core composites from Antarctica and Greenland. Ice core records are translated into stratospheric aerosol properties for use in climate models through the Easy Volcanic Aerosol (EVA) module, which provides an analytic representation of volcanic stratospheric aerosol forcing based on available observations and aerosol model results, prescribing the aerosol's radiative properties and primary modes of spatial and temporal variability. The evolv2k volcanic forcing dataset covers the past 2000 years, and has been provided for use in the Paleo-Modeling Intercomparison Project (PMIP), and VolMIP experiments within CMIP6. Here, we describe the construction of the eVolv2k data set, compare with prior forcing sets, and show initial simulation results.
Blending geological observations and convection models to reconstruct mantle dynamics
NASA Astrophysics Data System (ADS)
Coltice, Nicolas; Bocher, Marie; Fournier, Alexandre; Tackley, Paul
2015-04-01
Knowledge of the state of the Earth mantle and its temporal evolution is fundamental to a variety of disciplines in Earth Sciences, from the internal dynamics to its many expressions in the geological record (postglacial rebound, sea level change, ore deposit, tectonics or geomagnetic reversals). Mantle convection theory is the centerpiece to unravel the present and past state of the mantle. For the past 40 years considerable efforts have been made to improve the quality of numerical models of mantle convection. However, they are still sparsely used to estimate the convective history of the solid Earth, in comparison to ocean or atmospheric models for weather and climate prediction. The main shortcoming is their inability to successfully produce Earth-like seafloor spreading and continental drift self-consistently. Recent convection models have begun to successfully predict these processes. Such breakthrough opens the opportunity to retrieve the recent dynamics of the Earth's mantle by blending convection models together with advanced geological datasets. A proof of concept will be presented, consisting in a synthetic test based on a sequential data assimilation methodology.
Chen, Yong; Cai, Jiye; Zhao, Tao; Wang, Chenxi; Dong, Shuo; Luo, Shuqian; Chen, Zheng W
2005-06-01
The thin sectioning has been widely applied in electron microscopy (EM), and successfully used for an in situ observation of inner ultrastructure of cells. This powerful technique has recently been extended to the research field of atomic force microscopy (AFM). However, there have been no reports describing AFM imaging of serial thin sections and three-dimensional (3-D) reconstruction of cells and their inner structures. In the present study, we used AFM to scan serial thin sections approximately 60 nm thick of a mouse embryonic stem (ES) cell, and to observe the in situ inner ultrastructure including cell membrane, cytoplasm, mitochondria, nucleus membrane, and linear chromatin. The high-magnification AFM imaging of single mitochondria clearly demonstrated the outer membrane, inner boundary membrane and cristal membrane of mitochondria in the cellular compartment. Importantly, AFM imaging on six serial thin sections of a single mouse ES cell showed that mitochondria underwent sequential changes in the number, morphology and distribution. These nanoscale images allowed us to perform 3-D surface reconstruction of interested interior structures in cells. Based on the serial in situ images, 3-D models of morphological characteristics, numbers and distributions of interior structures of the single ES cells were validated and reconstructed. Our results suggest that the combined AFM and serial-thin-section technique is useful for the nanoscale imaging and 3-D reconstruction of single cells and their inner structures. This technique may facilitate studies of proliferating and differentiating stages of stem cells or somatic cells at a nanoscale.
Yoza, S; Gunji, H; Ono, I
1997-01-01
We report a case of maxillary reconstruction aimed at optimizing facial contour, oral function, and facial animation after radical maxillectomy. In the first stage, using combined latissimus dorsi serratus anterior flaps attached with ribs, we performed a three-dimensional restoration for midface defects. In the second stage, we performed dynamic reconstruction of the nasolabial fold and upper lip using a temporal muscle transposition. As a result, the upper lip was able to be elevated as much as 10 mm when the patient clenched his teeth, and the outcome was judged to be both aesthetically and functionally satisfactory.
NASA Astrophysics Data System (ADS)
Han, Cheolsu; Chung, Chung Choo
2011-05-01
We analyzed the illusory slopes of scanned images caused by the creep of a Z scanner in an atomic force microscope (AFM) operated in constant-force mode. A method to reconstruct a real topographic image using two scanned images was also developed. In atomic force microscopy, scanned images are distorted by undesirable effects such as creep, hysteresis of the Z scanner, and sample tilt. In contrast to other undesirable effects, the illusory slope that appears in the slow scanning direction of an AFM scan is highly related to the creep effect of the Z scanner. In the controller for a Z scanner, a position-sensitive detector is utilized to maintain a user-defined set-point or force between a tip and a sample surface. This serves to eliminate undesirable effects. The position-sensitive detector that detects the deflection of the cantilever is used to precisely measure the topography of a sample. In the conventional constant-force mode of an atomic force microscope, the amplitude of a control signal is used to construct a scanned image. However, the control signal contains not only the topography data of the sample, but also undesirable effects. Consequently, the scanned image includes the illusory slope due to the creep effect of the Z scanner. In an automatic scanning process, which requires fast scanning and high repeatability, an atomic force microscope must scan the sample surface immediately after a fast approach operation has been completed. As such, the scanned image is badly distorted by a rapid change in the early stages of the creep effect. In this paper, a new method to obtain the tilt angle of a sample and the creep factor of the Z scanner using only two scanned images with no special tools is proposed. The two scanned images can be obtained by scanning the same area of a sample in two different slow scanning directions. We can then reconstruct a real topographic image based on the scanned image, in which both the creep effect of the Z scanner and the slope
Laser Actuation of Cantilevers for Picometre Amplitude Dynamic Force Microscopy
Evans, Drew R.; Tayati, Ponlawat; An, Hongjie; Lam, Ping Koy; Craig, Vincent S. J.; Senden, Tim J.
2014-01-01
As nanoscale and molecular devices become reality, the ability to probe materials on these scales is increasing in importance. To address this, we have developed a dynamic force microscopy technique where the flexure of the microcantilever is excited using an intensity modulated laser beam to achieve modulation on the picoscale. The flexure arises from thermally induced bending through differential expansion and the conservation of momentum when the photons are reflected and absorbed by the cantilever. In this study, we investigated the photothermal and photon pressure responses of monolithic and layered cantilevers using a modulated laser in air and immersed in water. The developed photon actuation technique is applied to the stretching of single polymer chains. PMID:24993548
Vertically polarizing undulator with dynamic compensation of magnetic forces
NASA Astrophysics Data System (ADS)
Strelnikov, N.; Vasserman, I.; Xu, J.; Jensen, D.; Schmidt, O.; Trakhtenberg, E.; Suthar, K.; Moog, E. R.; Pile, G.; Gluskin, E.
2017-01-01
As part of the R&D program of the LCLS-II project, a novel 3.4-meter-long undulator prototype with horizontal magnetic field and dynamic force compensation has recently been developed at the Advanced Photon Source (APS). Previous steps in this development were the shorter 0.8-meter-long and 2.8-meter-long prototypes. Extensive mechanical and magnetic testing were carried out for each prototype, and each prototype was magnetically tuned using magnetic shims. The resulting performance of the 3.4-meter-long undulator prototype meets all requirements for the LCLS-II insertion device, including limits on the field integrals, phase errors, higher-order magnetic moments, and electron-beam trajectory for all operational gaps, as well as the reproducibility and accuracy of the gap settings.
Reconstructing Source-Sink Dynamics in a Population with a Pelagic Dispersal Phase
Chen, Kun; Ciannelli, Lorenzo; Decker, Mary Beth; Ladd, Carol; Cheng, Wei; Zhou, Ziqian; Chan, Kung-Sik
2014-01-01
For many organisms, the reconstruction of source-sink dynamics is hampered by limited knowledge of the spatial assemblage of either the source or sink components or lack of information on the strength of the linkage for any source-sink pair. In the case of marine species with a pelagic dispersal phase, these problems may be mitigated through the use of particle drift simulations based on an ocean circulation model. However, when simulated particle trajectories do not intersect sampling sites, the corroboration of model drift simulations with field data is hampered. Here, we apply a new statistical approach for reconstructing source-sink dynamics that overcomes the aforementioned problems. Our research is motivated by the need for understanding observed changes in jellyfish distributions in the eastern Bering Sea since 1990. By contrasting the source-sink dynamics reconstructed with data from the pre-1990 period with that from the post-1990 period, it appears that changes in jellyfish distribution resulted from the combined effects of higher jellyfish productivity and longer dispersal of jellyfish resulting from a shift in the ocean circulation starting in 1991. A sensitivity analysis suggests that the source-sink reconstruction is robust to typical systematic and random errors in the ocean circulation model driving the particle drift simulations. The jellyfish analysis illustrates that new insights can be gained by studying structural changes in source-sink dynamics. The proposed approach is applicable for the spatial source-sink reconstruction of other species and even abiotic processes, such as sediment transport. PMID:24835251
Force regulated dynamics of RPA on a DNA fork
Kemmerich, Felix E.; Daldrop, Peter; Pinto, Cosimo; Levikova, Maryna; Cejka, Petr; Seidel, Ralf
2016-01-01
Replication protein A (RPA) is a single-stranded DNA binding protein, involved in most aspects of eukaryotic DNA metabolism. Here, we study the behavior of RPA on a DNA substrate that mimics a replication fork. Using magnetic tweezers we show that both yeast and human RPA can open forked DNA when sufficient external tension is applied. In contrast, at low force, RPA becomes rapidly displaced by the rehybridization of the DNA fork. This process appears to be governed by the binding or the release of an RPA microdomain (toehold) of only few base-pairs length. This gives rise to an extremely rapid exchange dynamics of RPA at the fork. Fork rezipping rates reach up to hundreds of base-pairs per second, being orders of magnitude faster than RPA dissociation from ssDNA alone. Additionally, we show that RPA undergoes diffusive motion on ssDNA, such that it can be pushed over long distances by a rezipping fork. Generally the behavior of both human and yeast RPA homologs is very similar. However, in contrast to yeast RPA, the dissociation of human RPA from ssDNA is greatly reduced at low Mg2+ concentrations, such that human RPA can melt DNA in absence of force. PMID:27016742
Current Status of Protein Force Fields for Molecular Dynamics
Lopes, Pedro E.M.; Guvench, Olgun
2015-01-01
Summary The current status of classical force fields for proteins is reviewed. These include additive force fields as well as the latest developments in the Drude and AMOEBA polarizable force fields. Parametrization strategies developed specifically for the Drude force field are described and compared with the additive CHARMM36 force field. Results from molecular simulations of proteins and small peptides are summarized to illustrate the performance of the Drude and AMOEBA force fields. PMID:25330958
Wang, Shaobu; Lu, Shuai; Zhou, Ning; Lin, Guang; Elizondo, Marcelo A.; Pai, M. A.
2014-09-04
In interconnected power systems, dynamic model reduction can be applied on generators outside the area of interest to mitigate the computational cost with transient stability studies. This paper presents an approach of deriving the reduced dynamic model of the external area based on dynamic response measurements, which comprises of three steps, dynamic-feature extraction, attribution and reconstruction (DEAR). In the DEAR approach, a feature extraction technique, such as singular value decomposition (SVD), is applied to the measured generator dynamics after a disturbance. Characteristic generators are then identified in the feature attribution step for matching the extracted dynamic features with the highest similarity, forming a suboptimal ‘basis’ of system dynamics. In the reconstruction step, generator state variables such as rotor angles and voltage magnitudes are approximated with a linear combination of the characteristic generators, resulting in a quasi-nonlinear reduced model of the original external system. Network model is un-changed in the DEAR method. Tests on several IEEE standard systems show that the proposed method gets better reduction ratio and response errors than the traditional coherency aggregation methods.
Lacustrine 87Sr/86Sr as a tracer to reconstruct Milankovitch forcing of the Eocene hydrologic cycle
NASA Astrophysics Data System (ADS)
Baddouh, M'bark; Meyers, Stephen R.; Carroll, Alan R.; Beard, Brian L.; Johnson, Clark M.
2016-08-01
The Green River Formation (GRF) provides one of the premier paleoclimate archives of the Early Eocene Climatic Optimum (∼50 Ma), representing the apex of the early Cenozoic greenhouse climate. Rhythmic lake-level variability expressed in the GRF has inspired numerous hypotheses for the behavior of the Eocene hydrologic cycle, including its linkage to astronomical forcing, solar variability, and the El Niño Southern Oscillation (ENSO). However, the lack of sufficient proxy data to document atmospheric water-mass transport and the geographic pattern of evaporation/precipitation/runoff has made it difficult to discriminate between different models for astronomical forcing. Variable 87Sr/86Sr ratios of bedrock that encompass the GRF provide an opportunity to reconstruct the spatial expression of the Eocene hydrologic cycle and its linkage to lake level. Here Sr isotope data from the Wilkins Peak Member, a rhythmic succession that has been demonstrated to record Milankovitch forcing of lake levels, indicate that high lake levels reflect an increased proportion of runoff from less radiogenic rocks west of the basin, eliminating a number of the existing astronomical-forcing hypotheses. The 87Sr/86Sr variability is consistent with a change in mean ENSO state, which is predicted by climate models to be linked to orbital-insolation. Thus, the 87Sr/86Sr data reveal a coupling of high frequency (ENSO) and low frequency (astronomical) climate variability, and also predict the existence of sizable astronomically-forced alpine snowpack during the last greenhouse climate. More broadly, this study demonstrates the utility of 87Sr/86Sr as a powerful tool for reconstructing the deep-time hydrologic cycle.
NASA Astrophysics Data System (ADS)
Chen, Maomao; Zhang, Jiulou; Cai, Chuangjian; Gao, Yang; Luo, Jianwen
2016-06-01
Dynamic fluorescence molecular tomography (DFMT) is a valuable method to evaluate the metabolic process of contrast agents in different organs in vivo, and direct reconstruction methods can improve the temporal resolution of DFMT. However, challenges still remain due to the large time consumption of the direct reconstruction methods. An acceleration strategy using graphics processing units (GPU) is presented. The procedure of conjugate gradient optimization in the direct reconstruction method is programmed using the compute unified device architecture and then accelerated on GPU. Numerical simulations and in vivo experiments are performed to validate the feasibility of the strategy. The results demonstrate that, compared with the traditional method, the proposed strategy can reduce the time consumption by ˜90% without a degradation of quality.
Force and Moment Approach for Achievable Dynamics Using Nonlinear Dynamic Inversion
NASA Technical Reports Server (NTRS)
Ostroff, Aaron J.; Bacon, Barton J.
1999-01-01
This paper describes a general form of nonlinear dynamic inversion control for use in a generic nonlinear simulation to evaluate candidate augmented aircraft dynamics. The implementation is specifically tailored to the task of quickly assessing an aircraft's control power requirements and defining the achievable dynamic set. The achievable set is evaluated while undergoing complex mission maneuvers, and perfect tracking will be accomplished when the desired dynamics are achievable. Variables are extracted directly from the simulation model each iteration, so robustness is not an issue. Included in this paper is a description of the implementation of the forces and moments from simulation variables, the calculation of control effectiveness coefficients, methods for implementing different types of aerodynamic and thrust vectoring controls, adjustments for control effector failures, and the allocation approach used. A few examples illustrate the perfect tracking results obtained.
Reconstructing the intermittent dynamics of the torque in wind turbines
NASA Astrophysics Data System (ADS)
Lind, Pedro G.; Wächter, Matthias; Peinke, Joachim
2014-06-01
We apply a framework introduced in the late nineties to analyze load measurements in off-shore wind energy converters (WEC). The framework is borrowed from statistical physics and properly adapted to the analysis of multivariate data comprising wind velocity, power production and torque measurements, taken at one single WEC. In particular, we assume that wind statistics drives the fluctuations of the torque produced in the wind turbine and show how to extract an evolution equation of the Langevin type for the torque driven by the wind velocity. It is known that the intermittent nature of the atmosphere, i.e. of the wind field, is transferred to the power production of a wind energy converter and consequently to the shaft torque. We show that the derived stochastic differential equation quantifies the dynamical coupling of the measured fluctuating properties as well as it reproduces the intermittency observed in the data. Finally, we discuss our approach in the light of turbine monitoring, a particular important issue in off-shore wind farms.
Using ToxCast data to reconstruct dynamic cell state ...
AbstractBackground. High-throughput in vitro screening is an important tool for evaluating the potential biological activity of the thousands of existing chemicals in commerce and the hundreds more introduced each year. Among the assay technologies available, high-content imaging (HCI) allows multiplexed measurements of cellular phenotypic changes induced by chemical exposures. For a large chemical inventory having limited concentration-time series data, the deconvolution of cellular response profiles into transitive or irrevocable state trajectories is an important consideration. Objectives. Our goal was to analyze temporal and concentration-related cellular changes measured using HCI to identify the “tipping point” at which the cells did not show recovery towards a normal phenotypic state. Methods. The effects of 976 chemicals (ToxCast Phase I and II) were evaluated using HCI as a function of concentration and time in HepG2 cells over a 72-hr exposure period to concentrations ranging from 0.4- to 200 µM. The cellular endpoints included nuclear p53 accumulation, JNK, markers of oxidative stress, cytoskeletal changes, mitochondrial energization and density, cell viability and cell cycle progression. A novel computational model was developed to interpret dynamic multidimensional system responses as cell-state trajectories. Results. Analysis of cell-state trajectories showed that HepG2 cells were resilient to the effects of 178 chemicals up to the highest co
Elias, John J.; Kelly, Michael J.; Smith, Kathryn E.; Gall, Kenneth A.; Farr, Jack
2016-01-01
Background: Medial patellofemoral ligament (MPFL) reconstruction is performed to prevent recurrent instability, but errors in femoral fixation can elevate graft tension. Hypothesis: Errors related to femoral fixation will overconstrain the patella and increase medial patellofemoral pressures. Study Design: Controlled laboratory study. Methods: Five knees with patellar instability were represented with computational models. Kinematics during knee extension were characterized from computational reconstruction of motion performed within a dynamic computed tomography (CT) scanner. Multibody dynamic simulation of knee extension, with discrete element analysis used to quantify contact pressures, was performed for the preoperative condition and after MPFL reconstruction. A standard femoral attachment and graft resting length were set for each knee. The resting length was decreased by 2 mm, and the femoral attachment was shifted 5 mm posteriorly. The simulated errors were also combined. Root-mean-square errors were quantified for the comparison of preoperative patellar lateral shift and tilt between computationally reconstructed motion and dynamic simulation. Simulation output was compared between the preoperative and MPFL reconstruction conditions with repeated-measures Friedman tests and Dunnett comparisons against a control, which was the standard MPFL condition, with statistical significance set at P < .05. Results: Root-mean-square errors for simulated patellar tilt and shift were 5.8° and 3.3 mm, respectively. Patellar lateral tracking for the preoperative condition was significantly larger near full extension compared with the standard MPFL reconstruction (mean differences of 8 mm and 13° for shift and tilt, respectively, at 0°), and lateral tracking was significantly smaller for a posterior femoral attachment (mean differences of 3 mm and 4° for shift and tilt, respectively, at 0°). The maximum medial pressure was also larger for the short graft with a
A New Forced Oscillation Capability for the Transonic Dynamics Tunnel
NASA Technical Reports Server (NTRS)
Piatak, David J.; Cleckner, Craig S.
2002-01-01
A new forced oscillation system has been installed and tested at NASA Langley Research Center's Transonic Dynamics Tunnel (TDT). The system is known as the Oscillating Turntable (OTT) and has been designed for the purpose of oscillating, large semispan models in pitch at frequencies up to 40 Hz to acquire high-quality unsteady pressure and loads data. Precisely controlled motions of a wind-tunnel model on the OTT can yield unsteady aerodynamic phenomena associated with flutter, limit cycle oscillations, shock dynamics, and non-linear aerodynamic effects on many vehicle configurations. This paper will discuss general design and components of the OTT and will present test data from performance testing and from research tests on two rigid semispan wind-tunnel models. The research tests were designed to challenge the OTT over a wide range of operating conditions while acquiring unsteady pressure data on a small rectangular supercritical wing and a large supersonic transport wing. These results will be presented to illustrate the performance capabilities, consistency of oscillations, and usefulness of the OTT as a research tool.
Giannoula, Alexia; Cobbold, Richard; Bezerianos, Anastasios
2014-02-01
A modulated acoustic radiation force, produced by two confocal tone-burst ultrasound beams of slightly different frequencies (i.e. 2.0 MHz ± Δf/2, where Δf is the difference frequency), can be used to remotely generate modulated low-frequency (Δf ≤ 500 Hz) shear waves in attenuating media. By appropriately selecting the duration of the two beams, the energy of the generated shear waves can be concentrated around the difference frequency (i.e., Δf ± Δf/2). In this manner, neither their amplitude nor their phase information is distorted by frequency-dependent effects, thereby, enabling a more accurate reconstruction of the viscoelastic properties. Assuming a Voigt viscoelastic model, this paper describes the use of a finite-element-method model to simulate three-dimensional (3-D) shear-wave propagation in viscoelastic media containing a spherical inclusion. Nonlinear propagation is assumed for the two ultrasound beams, so that higher harmonics are developed in the force and shear spectrum. Finally, an inverse reconstruction algorithm is used to extract 3-D maps of the local shear modulus and viscosity from the simulated shear-displacement fields based on the fundamental and second-harmonic component. The quality of the reconstructed maps is evaluated using the contrast between the inclusion and the background and the contrast-to-noise ratio (CNR). It is shown that the shear modulus can be accurately reconstructed based on the fundamental component, such that the observed contrast deviates from the true contrast by a root-mean-square-error (RMSE) of only 0.38 and the CNR is greater than 30 dB. If the second-harmonic component is used, the RMSE becomes 1.54 and the corresponding CNR decreases by approximately 10-15 dB. The reconstructed shear viscosity maps based on the second harmonic are shown to be of higher quality than those based on the fundamental. The effects of noise are also investigated and a fusion operation between the two spectral components is
NASA Astrophysics Data System (ADS)
Shapiro, A. I.; Schmutz, W.; Rozanov, E.; Schoell, M.; Haberreiter, M.; Shapiro, A. V.; Nyeki, S.
2011-05-01
Context. The variable Sun is the most likely candidate for the natural forcing of past climate changes on time scales of 50 to 1000 years. Evidence for this understanding is that the terrestrial climate correlates positively with the solar activity. During the past 10 000 years, the Sun has experienced the substantial variations in activity and there have been numerous attempts to reconstruct solar irradiance. While there is general agreement on how solar forcing varied during the last several hundred years - all reconstructions are proportional to the solar activity - there is scientific controversy on the magnitude of solar forcing. Aims: We present a reconstruction of the total and spectral solar irradiance covering 130 nm-10 μm from 1610 to the present with an annual resolution and for the Holocene with a 22-year resolution. Methods: We assume that the minimum state of the quiet Sun in time corresponds to the observed quietest area on the present Sun. Then we use available long-term proxies of the solar activity, which are 10Be isotope concentrations in ice cores and 22-year smoothed neutron monitor data, to interpolate between the present quiet Sun and the minimum state of the quiet Sun. This determines the long-term trend in the solar variability, which is then superposed with the 11-year activity cycle calculated from the sunspot number. The time-dependent solar spectral irradiance from about 7000 BC to the present is then derived using a state-of-the-art radiation code. Results: We derive a total and spectral solar irradiance that was substantially lower during the Maunder minimum than the one observed today. The difference is remarkably larger than other estimations published in the recent literature. The magnitude of the solar UV variability, which indirectly affects the climate, is also found to exceed previous estimates.We discuss in detail the assumptions that lead us to this conclusion. Appendix is only available in electronic form at http://www.aanda.org
Liu, Xin; Wang, Hongkai; Yan, Zhuangzhi
2016-01-01
Dynamic fluorescence molecular tomography (FMT) plays an important role in drug delivery research. However, the majority of current reconstruction methods focus on solving the stationary FMT problems. If the stationary reconstruction methods are applied to the time-varying fluorescence measurements, the reconstructed results may suffer from a high level of artifacts. In addition, based on the stationary methods, only one tomographic image can be obtained after scanning one circle projection data. As a result, the movement of fluorophore in imaged object may not be detected due to the relative long data acquisition time (typically >1 min). In this paper, we apply extended kalman filter (EKF) technique to solve the non-stationary fluorescence tomography problem. Especially, to improve the EKF reconstruction performance, the generalized inverse of kalman gain is calculated by a second-order iterative method. The numerical simulation, phantom, and in vivo experiments are performed to evaluate the performance of the method. The experimental results indicate that by using the proposed EKF-based second-order iterative (EKF-SOI) method, we cannot only clearly resolve the time-varying distributions of fluorophore within imaged object, but also greatly improve the reconstruction time resolution (~2.5 sec/frame) which makes it possible to detect the movement of fluorophore during the imaging processes. PMID:27895993
Liu, Xin; Wang, Hongkai; Yan, Zhuangzhi
2016-11-01
Dynamic fluorescence molecular tomography (FMT) plays an important role in drug delivery research. However, the majority of current reconstruction methods focus on solving the stationary FMT problems. If the stationary reconstruction methods are applied to the time-varying fluorescence measurements, the reconstructed results may suffer from a high level of artifacts. In addition, based on the stationary methods, only one tomographic image can be obtained after scanning one circle projection data. As a result, the movement of fluorophore in imaged object may not be detected due to the relative long data acquisition time (typically >1 min). In this paper, we apply extended kalman filter (EKF) technique to solve the non-stationary fluorescence tomography problem. Especially, to improve the EKF reconstruction performance, the generalized inverse of kalman gain is calculated by a second-order iterative method. The numerical simulation, phantom, and in vivo experiments are performed to evaluate the performance of the method. The experimental results indicate that by using the proposed EKF-based second-order iterative (EKF-SOI) method, we cannot only clearly resolve the time-varying distributions of fluorophore within imaged object, but also greatly improve the reconstruction time resolution (~2.5 sec/frame) which makes it possible to detect the movement of fluorophore during the imaging processes.
Delahunt, Eamonn; Chawke, Mark; Kelleher, Judy; Murphy, Katie; Prendiville, Anna; Sweeny, Lauren; Patterson, Matt
2013-01-01
Context: Deficits in lower limb kinematics and postural stability are predisposing factors to the development of knee ligamentous injury. The extent to which these deficits are present after anterior cruciate ligament (ACL) reconstruction is still largely unknown. The primary hypothesis of the present study was that female athletes who have undergone ACL reconstruction and who have returned to sport participation would exhibit deficits in dynamic postural stability as well as deficiencies in hip- and knee-joint kinematics when compared with an age-, activity-, and sex-matched uninjured control group. Objective: To investigate dynamic postural stability as quantified by the Star Excursion Balance Test (SEBT) and simultaneous hip- and knee-joint kinematic profiles in female athletes who have undergone ACL reconstruction. Design: Descriptive laboratory study. Setting: University motion-analysis laboratory. Patients or Other Participants: Fourteen female athletes who had previously undergone ACL reconstruction (ACL-R) and 17 age- and sex-matched uninjured controls. Intervention(s): Each participant performed 3 trials of the anterior, posterior-medial, and posterior-lateral directional components of the SEBT. Main Outcome Measure(s): Reach distances for each directional component were quantified and expressed as a percentage of leg length. Simultaneous hip- and knee-joint kinematic profiles were recorded using a motion-analysis system. Results: The ACL-R group had decreased reach distances on the posterior-medial (P < .01) and posterior-lateral (P < .01) directional components of the SEBT. During performance of the directional components of the SEBT, ACL-R participants demonstrated altered hip-joint frontal-, sagittal-, and transverse-plane kinematic profiles (P < .05), as well as altered knee-joint sagittal-plane kinematic profiles (P < .05). Conclusions: Deficits in dynamic postural stability and concomitant altered hip- and knee-joint kinematics are present after ACL
Davtyan, Aram; Dama, James F.; Voth, Gregory A.; Andersen, Hans C.
2015-04-21
Coarse-grained (CG) models of molecular systems, with fewer mechanical degrees of freedom than an all-atom model, are used extensively in chemical physics. It is generally accepted that a coarse-grained model that accurately describes equilibrium structural properties (as a result of having a well constructed CG potential energy function) does not necessarily exhibit appropriate dynamical behavior when simulated using conservative Hamiltonian dynamics for the CG degrees of freedom on the CG potential energy surface. Attempts to develop accurate CG dynamic models usually focus on replacing Hamiltonian motion by stochastic but Markovian dynamics on that surface, such as Langevin or Brownian dynamics. However, depending on the nature of the system and the extent of the coarse-graining, a Markovian dynamics for the CG degrees of freedom may not be appropriate. In this paper, we consider the problem of constructing dynamic CG models within the context of the Multi-Scale Coarse-graining (MS-CG) method of Voth and coworkers. We propose a method of converting a MS-CG model into a dynamic CG model by adding degrees of freedom to it in the form of a small number of fictitious particles that interact with the CG degrees of freedom in simple ways and that are subject to Langevin forces. The dynamic models are members of a class of nonlinear systems interacting with special heat baths that were studied by Zwanzig [J. Stat. Phys. 9, 215 (1973)]. The properties of the fictitious particles can be inferred from analysis of the dynamics of all-atom simulations of the system of interest. This is analogous to the fact that the MS-CG method generates the CG potential from analysis of equilibrium structures observed in all-atom simulation data. The dynamic models generate a non-Markovian dynamics for the CG degrees of freedom, but they can be easily simulated using standard molecular dynamics programs. We present tests of this method on a series of simple examples that demonstrate that
NASA Astrophysics Data System (ADS)
Davtyan, Aram; Dama, James F.; Voth, Gregory A.; Andersen, Hans C.
2015-04-01
Coarse-grained (CG) models of molecular systems, with fewer mechanical degrees of freedom than an all-atom model, are used extensively in chemical physics. It is generally accepted that a coarse-grained model that accurately describes equilibrium structural properties (as a result of having a well constructed CG potential energy function) does not necessarily exhibit appropriate dynamical behavior when simulated using conservative Hamiltonian dynamics for the CG degrees of freedom on the CG potential energy surface. Attempts to develop accurate CG dynamic models usually focus on replacing Hamiltonian motion by stochastic but Markovian dynamics on that surface, such as Langevin or Brownian dynamics. However, depending on the nature of the system and the extent of the coarse-graining, a Markovian dynamics for the CG degrees of freedom may not be appropriate. In this paper, we consider the problem of constructing dynamic CG models within the context of the Multi-Scale Coarse-graining (MS-CG) method of Voth and coworkers. We propose a method of converting a MS-CG model into a dynamic CG model by adding degrees of freedom to it in the form of a small number of fictitious particles that interact with the CG degrees of freedom in simple ways and that are subject to Langevin forces. The dynamic models are members of a class of nonlinear systems interacting with special heat baths that were studied by Zwanzig [J. Stat. Phys. 9, 215 (1973)]. The properties of the fictitious particles can be inferred from analysis of the dynamics of all-atom simulations of the system of interest. This is analogous to the fact that the MS-CG method generates the CG potential from analysis of equilibrium structures observed in all-atom simulation data. The dynamic models generate a non-Markovian dynamics for the CG degrees of freedom, but they can be easily simulated using standard molecular dynamics programs. We present tests of this method on a series of simple examples that demonstrate that
Caves, Leo S D; Verma, Chandra S
2002-04-01
Central to the study of a complex dynamical system is knowledge of its phase space behavior. Experimentally, it is rarely possible to record a system's (multidimensional) phase space variables. Rather, the system is observed via one (or few) scalar-valued signal(s) of emission or response. In dynamical systems analysis, the multidimensional phase space of a system can be reconstructed by manipulation of a one-dimensional signal. The trick is in the construction of a (higher-dimensional) space through the use of a time lag (or delay) on the signal time series. The trajectory in this embedding space can then be examined using phase portraits generated in selected subspaces. By contrast, in computer simulation, one has an embarrassment of riches: direct access to the complete multidimensional phase space variables, at arbitrary time resolution and precision. Here, the problem is one of reducing the dimensionality to make analysis tractable. This can be achieved through linear or nonlinear projection of the trajectory into subspaces containing high information content. This study considers trajectories of the small protein crambin from molecular dynamics simulations. The phase space behavior is examined using principal component analysis on the Cartesian coordinate covariance matrix of 138 dimensions. In addition, the phase space is reconstructed from a one dimensional signal, representing the radius of gyration of the structure along the trajectory. Comparison of low-dimensional phase portraits obtained from the two methods shows that the complete phase space distribution is well represented by the reconstruction. The study suggests that it may be possible to develop a deeper connection between the experimental and simulated dynamics of biomolecules via phase space reconstruction using data emerging from recent advances in single-molecule time-resolved biophysical techniques.
Regularized Reconstruction of Dynamic Contrast-Enhanced MR Images for Evaluation of Breast Lesions
2009-09-01
in determining the image estimate is computing the gradient of the cost function. We were able to accelerate our computation by exploiting Toeplitz ...but, to our knowledge, we are the first to apply it to dynamic MRI. For this study, the Toeplitz -modified algorithm was 1.7 times faster than the...Decreased computation time by exploiting Toeplitz matrices in our reconstruction. • Investigated choice of algorithms’ regularization parameters based on
A nonlinear correlation function for selecting the delay time in dynamical reconstructions
NASA Astrophysics Data System (ADS)
Aguirre, Luis Antonio
1995-02-01
Numerical results discussed in this paper suggest that a function which detects nonlinear correlations in time series usually indicates shorter correlation times than the linear autocorrelation function which is often used for this purpose. The nonlinear correlation function can also detect changes in the data which cannot be distinguished by the linear counterpart. This affects a number of approaches for the selection of the delay time used in the reconstruction of nonlinear dynamics from a single time series based on time delay coordinates.
Forcing of stratospheric chemistry and dynamics during the Dalton Minimum
NASA Astrophysics Data System (ADS)
Anet, J. G.; Muthers, S.; Rozanov, E.; Raible, C. C.; Peter, T.; Stenke, A.; Shapiro, A. I.; Beer, J.; Steinhilber, F.; Brönnimann, S.; Arfeuille, F.; Brugnara, Y.; Schmutz, W.
2013-11-01
when all forcing factors are applied during the Dalton Minimum (DM) - this effect is especially well visible for NOx/NOy. Thus, this study also shows the non-linear behaviour of the coupled chemistry-climate system. Finally, we conclude that especially UV and volcanic eruptions dominate the changes in the ozone, temperature and dynamics while the NOx field is dominated by the energetic particle precipitation. Visible radiation changes have only very minor effects on both stratospheric dynamics and chemistry.
2014-01-01
We have used noncontact atomic force microscopy (NC-AFM) and scanning tunneling microscopy (STM) to study the rutile TiO2(011) surface. A series of (2n × 1) reconstructions were observed, including two types of (4 × 1) reconstruction. High-resolution NC-AFM and STM images indicate that the (4 × 1)-α phase has the same structural elements as the more widely reported (2 × 1) reconstruction. An array of analogous higher-order (2n × 1) reconstructions were also observed where n = 3–5. On the other hand, the (4 × 1)-β reconstruction seems to be a unique structure without higher-order analogues. A model is proposed for this structure that is also based on the (2 × 1) reconstruction but with additional microfacets of {111} character. PMID:25309642
Pang, Chi Lun; Yurtsever, Ayhan; Onoda, Jo; Sugimoto, Yoshiaki; Thornton, Geoff
2014-10-09
We have used noncontact atomic force microscopy (NC-AFM) and scanning tunneling microscopy (STM) to study the rutile TiO2(011) surface. A series of (2n × 1) reconstructions were observed, including two types of (4 × 1) reconstruction. High-resolution NC-AFM and STM images indicate that the (4 × 1)-α phase has the same structural elements as the more widely reported (2 × 1) reconstruction. An array of analogous higher-order (2n × 1) reconstructions were also observed where n = 3-5. On the other hand, the (4 × 1)-β reconstruction seems to be a unique structure without higher-order analogues. A model is proposed for this structure that is also based on the (2 × 1) reconstruction but with additional microfacets of {111} character.
An Evaluation of Using Dynamical Downscaling to Reconstruct Historical Atmospheric Data
NASA Astrophysics Data System (ADS)
Mann, Hilary M.
The purpose of this project is to determine whether climate data reconstruction by dynamical downscaling of NCEP/NCAR (National Centers for Environmental Prediction/National Center for Atmospheric Research) historical global reanalysis atmospheric data can provide an accurate input for hydrological models to be used in watersheds with limited ground observations. To do this, historical global reanalysis atmospheric data were dynamically downscaled to a 3km resolution over the Upper Feather, Yuba, and American River watersheds using the Fifth-Generation NCAR / Penn State Mesoscale Model (MM5). To validate the reconstructed precipitation, historical data from California Data Exchange Center (CDEC) stations were first used. However, the data that can be obtained from them are coarse throughout the watersheds, so historical data from PRISM (parameter-elevation regressions on independent slopes model) were also used. The observation data from CDEC stations were compared to the model-simulated (reconstructed) hourly, 72-hour, and monthly averaged precipitation data. These comparisons all had fairly accurate results, allowing the temporal accuracy of the model to be validated. PRISM observation data were used to compare the simulated monthly basin-average precipitation and its spatial distribution over each watershed. These comparisons showed very good results for timing and peak values. Consequently, it was determined that the current MM5 Mesoscale Model can produce the accurate precipitation field data by dynamical downscaling for use in practice.
NASA Astrophysics Data System (ADS)
Kim, Duckhoe; Sahin, Ozgur
2015-03-01
Scanning probe microscopes can be used to image and chemically characterize surfaces down to the atomic scale. However, the localized tip-sample interactions in scanning probe microscopes limit high-resolution images to the topmost atomic layer of surfaces, and characterizing the inner structures of materials and biomolecules is a challenge for such instruments. Here, we show that an atomic force microscope can be used to image and three-dimensionally reconstruct chemical groups inside a protein complex. We use short single-stranded DNAs as imaging labels that are linked to target regions inside a protein complex, and T-shaped atomic force microscope cantilevers functionalized with complementary probe DNAs allow the labels to be located with sequence specificity and subnanometre resolution. After measuring pairwise distances between labels, we reconstruct the three-dimensional structure formed by the target chemical groups within the protein complex using simple geometric calculations. Experiments with the biotin-streptavidin complex show that the predicted three-dimensional loci of the carboxylic acid groups of biotins are within 2 Å of their respective loci in the corresponding crystal structure, suggesting that scanning probe microscopes could complement existing structural biological techniques in solving structures that are difficult to study due to their size and complexity.
Three Dimensional Dynamic Model Based Wind Field Reconstruction from Lidar Data
NASA Astrophysics Data System (ADS)
Raach, Steffen; Schlipf, David; Haizmann, Florian; Cheng, Po Wen
2014-06-01
Using the inflowing horizontal and vertical wind shears for individual pitch controller is a promising method if blade bending measurements are not available. Due to the limited information provided by a lidar system the reconstruction of shears in real-time is a challenging task especially for the horizontal shear in the presence of changing wind direction. The internal model principle has shown to be a promising approach to estimate the shears and directions in 10 minutes averages with real measurement data. The static model based wind vector field reconstruction is extended in this work taking into account a dynamic reconstruction model based on Taylor's Frozen Turbulence Hypothesis. The presented method provides time series over several seconds of the wind speed, shears and direction, which can be directly used in advanced optimal preview control. Therefore, this work is an important step towards the application of preview individual blade pitch control under realistic wind conditions. The method is tested using a turbulent wind field and a detailed lidar simulator. For the simulation, the turbulent wind field structure is flowing towards the lidar system and is continuously misaligned with respect to the horizontal axis of the wind turbine. Taylor's Frozen Turbulence Hypothesis is taken into account to model the wind evolution. For the reconstruction, the structure is discretized into several stages where each stage is reduced to an effective wind speed, superposed with a linear horizontal and vertical wind shear. Previous lidar measurements are shifted using again Taylor's Hypothesis. The wind field reconstruction problem is then formulated as a nonlinear optimization problem, which minimizes the residual between the assumed wind model and the lidar measurements to obtain the misalignment angle and the effective wind speed and the wind shears for each stage. This method shows good results in reconstructing the wind characteristics of a three dimensional
Rank-sparsity constrained, spectro-temporal reconstruction for retrospectively gated, dynamic CT
NASA Astrophysics Data System (ADS)
Clark, D. P.; Lee, C. L.; Kirsch, D. G.; Badea, C. T.
2015-03-01
Relative to prospective projection gating, retrospective projection gating for dynamic CT applications allows fast imaging times, minimizing the potential for physiological and anatomic variability. Preclinically, fast imaging is attractive due to the rapid clearance of low molecular weight contrast agents and the rapid heart rate of rodents. Clinically, retrospective gating is relevant for intraoperative C-arm CT. More generally, retrospective sampling provides an opportunity for significant reduction in x-ray dose within the framework of compressive sensing theory and sparsity-constrained iterative reconstruction. Even so, CT reconstruction from projections with random temporal sampling is a very poorly conditioned inverse problem, requiring high fidelity regularization to minimize variability in the reconstructed results. Here, we introduce a highly novel data acquisition and regularization strategy for spectro-temporal (5D) CT reconstruction from retrospectively gated projections. We show that by taking advantage of the rank-sparse structure and separability of the temporal and spectral reconstruction sub-problems, being able to solve each sub-problem independently effectively guarantees that we can solve both problems together. In this paper, we show 4D simulation results (2D + 2 energies + time) using the proposed technique and compare them with two competing techniques— spatio-temporal total variation minimization and prior image constrained compressed sensing. We also show in vivo, 5D (3D + 2 energies + time) myocardial injury data acquired in a mouse, reconstructing 20 data sets (10 phases, 2 energies) and performing material decomposition from data acquired over a single rotation (360°, dose: ~60 mGy).
Friddle, R W
2008-01-14
Harris, Song and Kiang [1] (HSK) describe their results on reconstructing the free energy profiles for both the stretch of the titin polymer, and the unfolding of an individual I27 domain. The new finding reported in [1] is the measurement of the free energy barrier (or activation energy) to unfolding the I27 domain. Due to a misinterpretation of the mechanics involved, the free energy surface (and thus the energy barrier) to unfolding the I27 domain was not measured.
Dynamics of offshore structures under sea waves and earthquake forces
Jain, A.K.
1996-12-31
The analysis and design of Offshore Structures is a complicated process and requires several assumptions and approximations. The structures have to resist a hostile environment and the loads acting on them in a typical ocean environment are many such as wind, waves, tides, currents, ice, earthquakes, temperature loads, operational loads and so on. It is necessary to design an offshore structure such that it can respond to moderate severe environmental loads without damage and be capable of resisting severe environmental loads without seriously endangering the occupants. In this paper, a study of the dynamic analysis of offshore structures in random seas to inputs of earthquake ground motions is presented. P-M spectrum is used for sea wave representation and the Morison equation defines the wave forcing function. Kanai-Tajimi`s PSDF is used for the ground acceleration due to earthquakes. Response analysis is carried out using the time domain random vibration approach. It has been observed that the hydrodynamic damping is higher in random seas than in still water and sea waves induce a reducing effect on the seismic response.
Successional dynamics in the seasonally forced diamond food web.
Klausmeier, Christopher A; Litchman, Elena
2012-07-01
Plankton seasonal succession is a classic example of nonequilibrium community dynamics. Despite the fact that it has been well studied empirically, it lacks a general quantitative theory. Here we investigate a food web model that includes a resource, two phytoplankton, and a shared grazer-the diamond food web-in a seasonal environment. The model produces a number of successional trajectories that have been widely discussed in the context of the verbal Plankton Ecology Group model of succession, such as a spring bloom of a good competitor followed by a grazer-induced clear-water phase, setting the stage for the late-season dominance of a grazer-resistant species. It also predicts a novel, counterintuitive trajectory where the grazer-resistant species has both early- and late-season blooms. The model often generates regular annual cycles but sometimes produces multiyear cycles or chaos, even with identical forcing each year. Parameterizing the model, we show how the successional trajectory depends on nutrient supply and the length of the growing season, two key parameters that vary among water bodies. This model extends nonequilibrium theory to food webs and is a first step toward a quantitative theory of plankton seasonal succession.
Yu, Zheng-yang; Zheng, Shu-sen; Chen, Lei-ting; He, Xiao-qian; Wang, Jian-jun
2005-07-01
This research studies the process of 3D reconstruction and dynamic concision based on 2D medical digital images using virtual reality modelling language (VRML) and JavaScript language, with a focus on how to realize the dynamic concision of 3D medical model with script node and sensor node in VRML. The 3D reconstruction and concision of body internal organs can be built with such high quality that they are better than those obtained from the traditional methods. With the function of dynamic concision, the VRML browser can offer better windows for man-computer interaction in real-time environment than ever before. 3D reconstruction and dynamic concision with VRML can be used to meet the requirement for the medical observation of 3D reconstruction and have a promising prospect in the fields of medical imaging.
Guzman, Horacio V; Garcia, Pablo D
2015-01-01
Summary We present a simulation environment, dForce, which can be used for a better understanding of dynamic force microscopy experiments. The simulator presents the cantilever–tip dynamics for two dynamic AFM methods, tapping mode AFM and bimodal AFM. It can be applied for a wide variety of experimental situations in air or liquid. The code provides all the variables and parameters relevant in those modes, for example, the instantaneous deflection and tip–surface force, velocity, virial, dissipated energy, sample deformation and peak force as a function of time or distance. The simulator includes a variety of interactions and contact mechanics models to describe AFM experiments including: van der Waals, Hertz, DMT, JKR, bottom effect cone correction, linear viscoelastic forces or the standard linear solid viscoelastic model. We have compared two numerical integration methods to select the one that offers optimal accuracy and speed. The graphical user interface has been designed to facilitate the navigation of non-experts in simulations. Finally, the accuracy of dForce has been tested against numerical simulations performed during the last 18 years. PMID:25821676
An airborne acoustic method to reconstruct a dynamically rough flow surface.
Krynkin, Anton; Horoshenkov, Kirill V; Van Renterghem, Timothy
2016-09-01
Currently, there is no airborne in situ method to reconstruct with high fidelity the instantaneous elevation of a dynamically rough surface of a turbulent flow. This work proposes a holographic method that reconstructs the elevation of a one-dimensional rough water surface from airborne acoustic pressure data. This method can be implemented practically using an array of microphones deployed over a dynamically rough surface or using a single microphone which is traversed above the surface at a speed that is much higher than the phase velocity of the roughness pattern. In this work, the theory is validated using synthetic data calculated with the Kirchhoff approximation and a finite difference time domain method over a number of measured surface roughness patterns. The proposed method is able to reconstruct the surface elevation with a sub-millimeter accuracy and over a representatively large area of the surface. Since it has been previously shown that the surface roughness pattern reflects accurately the underlying hydraulic processes in open channel flow [e.g., Horoshenkov, Nichols, Tait, and Maximov, J. Geophys. Res. 118(3), 1864-1876 (2013)], the proposed method paves the way for the development of non-invasive instrumentation for flow mapping and characterization that are based on the acoustic holography principle.
Colon Stem Cell and Crypt Dynamics Exposed by Cell Lineage Reconstruction
Itzkovitz, Shalev; Elbaz, Judith; Maruvka, Yosef E.; Segev, Elad; Shlush, Liran I.; Dekel, Nava; Shapiro, Ehud
2011-01-01
Stem cell dynamics in vivo are often being studied by lineage tracing methods. Our laboratory has previously developed a retrospective method for reconstructing cell lineage trees from somatic mutations accumulated in microsatellites. This method was applied here to explore different aspects of stem cell dynamics in the mouse colon without the use of stem cell markers. We first demonstrated the reliability of our method for the study of stem cells by confirming previously established facts, and then we addressed open questions. Our findings confirmed that colon crypts are monoclonal and that, throughout adulthood, the process of monoclonal conversion plays a major role in the maintenance of crypts. The absence of immortal strand mechanism in crypts stem cells was validated by the age-dependent accumulation of microsatellite mutations. In addition, we confirmed the positive correlation between physical and lineage proximity of crypts, by showing that the colon is separated into small domains that share a common ancestor. We gained new data demonstrating that colon epithelium is clustered separately from hematopoietic and other cell types, indicating that the colon is constituted of few progenitors and ruling out significant renewal of colonic epithelium from hematopoietic cells during adulthood. Overall, our study demonstrates the reliability of cell lineage reconstruction for the study of stem cell dynamics, and it further addresses open questions in colon stem cells. In addition, this method can be applied to study stem cell dynamics in other systems. PMID:21829376
Kobayashi, Kazuya; Liang, Yunfeng; Amano, Ken-ichi; Murata, Sumihiko; Matsuoka, Toshifumi; Takahashi, Satoru; Nishi, Naoya; Sakka, Tetsuo
2016-04-19
With the development of atomic force microscopy (AFM), it is now possible to detect the buried liquid-solid interfacial structure in three dimensions at the atomic scale. One of the model surfaces used for AFM is the muscovite surface because it is atomically flat after cleavage along the basal plane. Although it is considered that force profiles obtained by AFM reflect the interfacial structures (e.g., muscovite surface and water structure), the force profiles are not straightforward because of the lack of a quantitative relationship between the force and the interfacial structure. In the present study, molecular dynamics simulations were performed to investigate the relationship between the muscovite-water interfacial structure and the measured AFM force using a capped carbon nanotube (CNT) AFM tip. We provide divided force profiles, where the force contributions from each water layer at the interface are shown. They reveal that the first hydration layer is dominant in the total force from water even after destruction of the layer. Moreover, the lateral structure of the first hydration layer transcribes the muscovite surface structure. It resembles the experimentally resolved surface structure of muscovite in previous AFM studies. The local density profile of water between the tip and the surface provides further insight into the relationship between the water structure and the detected force structure. The detected force structure reflects the basic features of the atomic structure for the local hydration layers. However, details including the peak-peak distance in the force profile (force-distance curve) differ from those in the density profile (density-distance curve) because of disturbance by the tip.
Forcing of stratospheric chemistry and dynamics during the Dalton Minimum
NASA Astrophysics Data System (ADS)
Anet, J. G.; Muthers, S.; Rozanov, E.; Raible, C. C.; Peter, T.; Stenke, A.; Shapiro, A. I.; Beer, J.; Steinhilber, F.; Brönnimann, S.; Arfeuille, F.; Brugnara, Y.; Schmutz, W.
2013-06-01
The response of atmospheric chemistry and climate to volcanic eruptions and a decrease in solar activity during the Dalton Minimum is investigated with the fully coupled atmosphere-ocean-chemistry general circulation model SOCOL-MPIOM covering the time period 1780 to 1840 AD. We carried out several sensitivity ensemble experiments to separate the effects of (i) reduced solar ultra-violet (UV) irradiance, (ii) reduced solar visible and near infrared irradiance, (iii) enhanced galactic cosmic ray intensity as well as less intensive solar energetic proton events and auroral electron precipitation, and (iv) volcanic aerosols. The introduced changes of UV irradiance and volcanic aerosols significantly influence stratospheric climate in the early 19th century, whereas changes in the visible part of the spectrum and energetic particles have smaller effects. A reduction of UV irradiance by 15% causes global ozone decrease below the stratopause reaching 8% in the midlatitudes at 5 hPa and a significant stratospheric cooling of up to 2 °C in the midstratosphere and to 6 °C in the lower mesosphere. Changes in energetic particle precipitation lead only to minor changes in the yearly averaged temperature fields in the stratosphere. Volcanic aerosols heat the tropical lower stratosphere allowing more water vapor to enter the tropical stratosphere, which, via HOx reactions, decreases upper stratospheric and mesospheric ozone by roughly 4%. Conversely, heterogeneous chemistry on aerosols reduces stratospheric NOx leading to a 12% ozone increase in the tropics, whereas a decrease in ozone of up to 5% is found over Antarctica in boreal winter. The linear superposition of the different contributions is not equivalent to the response obtained in a simulation when all forcing factors are applied during the DM - this effect is especially well visible for NOx/NOy. Thus, this study highlights the non-linear behavior of the coupled chemistry-climate system. Finally, we conclude that
Reconstruction of an inn fire scene using the Fire Dynamics Simulator (FDS) program.
Chi, Jen-Hao
2013-01-01
An inn fire occurring in the middle of the night usually causes a great deal more injuries and deaths. This article examines the case study of an inn fire accident that resulted in the most serious casualties in Taiwan's history. Data based on the official fire investigation report and NFPA921 regulations are used, and the fire scenes are reconstructed using the latest Fire Dynamics Simulator (FDS) program from NIST. The personnel evacuation time and time variants for various fire hazard factors of reconstructive analysis clarify the reason for such a high number of casualties. It reveals that the FDS program has come to play an essential role in fire investigation. The close comparison between simulation result and the actual fire scene also provides fire prevention engineers, a possible utilization of FDS to examine the effects of improved schemes for fire safety of buildings.
Chen, Shuhang; Liu, Huafeng; Hu, Zhenghui; Zhang, Heye; Shi, Pengcheng; Chen, Yunmei
2015-07-01
Although of great clinical value, accurate and robust reconstruction and segmentation of dynamic positron emission tomography (PET) images are great challenges due to low spatial resolution and high noise. In this paper, we propose a unified framework that exploits temporal correlations and variations within image sequences based on low-rank and sparse matrix decomposition. Thus, the two separate inverse problems, PET image reconstruction and segmentation, are accomplished in a simultaneous fashion. Considering low signal to noise ratio and piece-wise constant assumption of PET images, we also propose to regularize low-rank and sparse matrices with vectorial total variation norm. The resulting optimization problem is solved by augmented Lagrangian multiplier method with variable splitting. The effectiveness of proposed approach is validated on realistic Monte Carlo simulation datasets and the real patient data.
Dynamic nuclear polarization in a magnetic resonance force microscope experiment.
Issac, Corinne E; Gleave, Christine M; Nasr, Paméla T; Nguyen, Hoang L; Curley, Elizabeth A; Yoder, Jonilyn L; Moore, Eric W; Chen, Lei; Marohn, John A
2016-04-07
We report achieving enhanced nuclear magnetization in a magnetic resonance force microscope experiment at 0.6 tesla and 4.2 kelvin using the dynamic nuclear polarization (DNP) effect. In our experiments a microwire coplanar waveguide delivered radiowaves to excite nuclear spins and microwaves to excite electron spins in a 250 nm thick nitroxide-doped polystyrene sample. Both electron and proton spin resonance were observed as a change in the mechanical resonance frequency of a nearby cantilever having a micron-scale nickel tip. NMR signal, not observable from Curie-law magnetization at 0.6 T, became observable when microwave irradiation was applied to saturate the electron spins. The resulting NMR signal's size, buildup time, dependence on microwave power, and dependence on irradiation frequency was consistent with a transfer of magnetization from electron spins to nuclear spins. Due to the presence of an inhomogeneous magnetic field introduced by the cantilever's magnetic tip, the electron spins in the sample were saturated in a microwave-resonant slice 10's of nm thick. The spatial distribution of the nuclear polarization enhancement factor ε was mapped by varying the frequency of the applied radiowaves. The observed enhancement factor was zero for spins in the center of the resonant slice, was ε = +10 to +20 for spins proximal to the magnet, and was ε = -10 to -20 for spins distal to the magnet. We show that this bipolar nuclear magnetization profile is consistent with cross-effect DNP in a ∼10(5) T m(-1) magnetic field gradient. Potential challenges associated with generating and using DNP-enhanced nuclear magnetization in a nanometer-resolution magnetic resonance imaging experiment are elucidated and discussed.
Changes in the Dynamics of a Rössler Oscillator by an External Forcing
NASA Astrophysics Data System (ADS)
Amanda, C. Mathias; Paulo, C. Rech
2013-03-01
We report some results indicating changes in the observed dynamics of the Rössler model under the influence of external sinusoidal forcing. By varying the control parameters of the external sinusoidal forcing, namely the amplitude and the angular frequency, we show, through numerical simulations which include parameter planes and Lyapunov exponents, that the external forcing can produce both chaos-order and order-chaos transitions. We also show that the sinusoidal forcing may generate hyperchaos.
NASA Astrophysics Data System (ADS)
Lyubimov, I. Y.; Guenza, M. G.
2013-03-01
The theory to reconstruct the atomistic-level chain diffusion from the accelerated dynamics that is measured in mesoscale simulations of the coarse-grained system, is applied here to the dynamics of cis-1,4-polybutadiene melts where each chain is described as a soft interacting colloidal particle. The rescaling formalism accounts for the corrections in the dynamics due to the change in entropy and the change in friction that are a consequence of the coarse-graining procedure. By including these two corrections the dynamics is rescaled to reproduce the realistic dynamics of the system described at the atomistic level. The rescaled diffusion coefficient obtained from mesoscale simulations of coarse-grained cis-1,4-polybutadiene melts shows good agreement with data from united atom simulations performed by Tsolou et al. [Macromolecules 38, 1478 (2005)], 10.1021/ma0491210. The derived monomer friction coefficient is used as an input to the theory for cooperative dynamics that describes the internal dynamics of a polymer moving in a transient regions of slow cooperative motion in a liquid of macromolecules. Theoretically predicted time correlation functions show good agreement with simulations in the whole range of length and time scales in which data are available.
NASA Astrophysics Data System (ADS)
Berkovich, Ronen; Klafter, Joseph; Urbakh, Michael
Free energy is one of the most fundamental thermodynamic functions, determining relative phase stability and serving as a generating function for other thermodynamic quantities. The calculation of free energies is a challenging enterprise. In equilibrium statistical mechanics, the free energy is related to the canonical partition function. The partition function itself involves integrations over all degrees of freedom in the system and, in most cases, cannot be easily calculated directly. In 1997, Jarzynski proved a remarkable equality that allows computing the equilibrium free-energy difference between two states from the probability distribution of the nonequilibrium work done on the system to switch between the two states. The Jarzynski equality provides a powerful free-energy difference estimator from a set of irreversible experiments. This method is closely related to free-energy perturbation approach, which is also a computational technique for estimating free-energy differences. The ability to map potential profiles and topologies is of major significance to areas as diverse as biological recognition and nanoscale friction. This capability has been demonstrated for frictional studies where a force between the tip of the scanning force microscope and the surface is probed. The surface free-energy corrugation produces a detectable friction forces. Thus, friction force microscopy (FFM) should be able to discriminate between energetically different areas on the probed surface. Here, we apply the Jarzynski equality for the analysis of FFM measurements and thus obtain a variation of the free energy along a surface.
Reconstruction of the Tambora forcing with global aerosol models : Challenges and limitations
NASA Astrophysics Data System (ADS)
Khodri, Myriam; Zanchettin, Davide; Timmreck, Claudia
2016-04-01
It is now generally recognised that volcanic eruptions have an important effect on climate variability from inter-annual to decadal timescales. For the largest tropical volcanic eruptions of the last millennium, simulated volcanic surface cooling derived from climate models often disagrees with the cooling seen in tree-ring-based proxies. Furthermore, cooling estimates from simulations show large uncertainties. Such disagreement can be related to several sources, including inconsistency of the currently available volcanic forcing datasets, unrealistic modelled volcanic forcing, insufficient representation of relevant climate processes, and different background climate states simulated at the time of the eruption. In particular, for eruptions that occurred before the observational period forcing characteristics related to the eruption magnitude and stratospheric aerosol properties are deduced from indirect evidences. So, while climatically relevant forcing properties for recent volcanic eruptions are relatively well constrained by direct observations, large uncertainties remain regarding processes of aerosol formation and evolution in the stratosphere after large tropical eruptions of the remote past. Several coordinated modelling assessments have been defined to frame future modeling activities and constrain the above-mentioned uncertainties. Among these, the sixth phase of the Coupled Model Intercomparison Project (CMIP6) has endorsed a multi-model assessment focused on the climatic response to strong volcanic eruptions (VolMIP). VolMIP defines a protocol for idealized volcanic-perturbation experiments to improve comparability among climate model results. Identification of a consensual volcanic forcing dataset for the 1815 Tambora eruption is a key step of VolMIP, as it is the largest-magnitude volcanic eruption of the past five centuries and reference for the VolMIP core experiments. Therefore, as a first key step, five current/state-of-the-art global aerosol
Computerized X-ray reconstruction tomography in stereometric analysis of cardiovascular dynamics
NASA Technical Reports Server (NTRS)
Robb, R. A.; Harris, L. D.; Ritman, E. L.
1977-01-01
A computerized technique is proposed for obtaining cross-sectional images of the dynamic spatial distribution of X-ray attenuation covering the entire anatomic extent of the thorax and its contents in living dogs with a resolution of 1 mm and at time intervals of 1/60 sec. Use is made of an X-ray imaging chain which is a new high-performance video-fluoroscopic system, unique in its design and construction and called SSDSR for single source dynamic spatial reconstructor. This dynamic spatial reconstruction system is shown to provide the temporally and spatially coherent multiple cross sections required to obtain the full three-dimensional anatomic and simultaneous hemodynamic information necessary for detailed quantitative analyses of regional cardiopulmonary and vascular functions in both basic investigations of animals and clinical diagnostic applications to patients. Numerous photographs supplement the text.
Modeling Robot Dynamic Performance for Endpoint Force Control
1988-08-01
we consider is robot endpoint force control, also known as manipulator compliant motion control. Force control research has been quite popular...manipulator through a programmed trajectory consisting of a sequence of joint positions and velocities. Position and velocity sensors located at the robot ...may be located. 1.1 Force Control Research Background Research in robot compliant motion control has been in these areas: " Passive compliance schemes
Dynamics and stability of mechanical systems with follower forces
NASA Technical Reports Server (NTRS)
Herrmann, G.
1971-01-01
A monograph on problems of stability of equilibrium of mechanical systems with follower forces is presented. Concepts of stability and criteria of stability are reviewed briefly, together with means of analytical specification of follower forces. Nondissipative systems with two degrees of freedom are discussed, and destabilizing effects due to various types of dissipative forces both in discrete and continuous systems, are treated. The analyses are accompanied by some quantative experiments and observations on demonstrational laboratory models.
Low dose dynamic CT myocardial perfusion imaging using a statistical iterative reconstruction method
Tao, Yinghua; Chen, Guang-Hong; Hacker, Timothy A.; Raval, Amish N.; Van Lysel, Michael S.; Speidel, Michael A.
2014-07-15
Purpose: Dynamic CT myocardial perfusion imaging has the potential to provide both functional and anatomical information regarding coronary artery stenosis. However, radiation dose can be potentially high due to repeated scanning of the same region. The purpose of this study is to investigate the use of statistical iterative reconstruction to improve parametric maps of myocardial perfusion derived from a low tube current dynamic CT acquisition. Methods: Four pigs underwent high (500 mA) and low (25 mA) dose dynamic CT myocardial perfusion scans with and without coronary occlusion. To delineate the affected myocardial territory, an N-13 ammonia PET perfusion scan was performed for each animal in each occlusion state. Filtered backprojection (FBP) reconstruction was first applied to all CT data sets. Then, a statistical iterative reconstruction (SIR) method was applied to data sets acquired at low dose. Image voxel noise was matched between the low dose SIR and high dose FBP reconstructions. CT perfusion maps were compared among the low dose FBP, low dose SIR and high dose FBP reconstructions. Numerical simulations of a dynamic CT scan at high and low dose (20:1 ratio) were performed to quantitatively evaluate SIR and FBP performance in terms of flow map accuracy, precision, dose efficiency, and spatial resolution. Results: Forin vivo studies, the 500 mA FBP maps gave −88.4%, −96.0%, −76.7%, and −65.8% flow change in the occluded anterior region compared to the open-coronary scans (four animals). The percent changes in the 25 mA SIR maps were in good agreement, measuring −94.7%, −81.6%, −84.0%, and −72.2%. The 25 mA FBP maps gave unreliable flow measurements due to streaks caused by photon starvation (percent changes of +137.4%, +71.0%, −11.8%, and −3.5%). Agreement between 25 mA SIR and 500 mA FBP global flow was −9.7%, 8.8%, −3.1%, and 26.4%. The average variability of flow measurements in a nonoccluded region was 16.3%, 24.1%, and 937
Low dose dynamic CT myocardial perfusion imaging using a statistical iterative reconstruction method
Tao, Yinghua; Chen, Guang-Hong; Hacker, Timothy A.; Raval, Amish N.; Van Lysel, Michael S.; Speidel, Michael A.
2014-01-01
Purpose: Dynamic CT myocardial perfusion imaging has the potential to provide both functional and anatomical information regarding coronary artery stenosis. However, radiation dose can be potentially high due to repeated scanning of the same region. The purpose of this study is to investigate the use of statistical iterative reconstruction to improve parametric maps of myocardial perfusion derived from a low tube current dynamic CT acquisition. Methods: Four pigs underwent high (500 mA) and low (25 mA) dose dynamic CT myocardial perfusion scans with and without coronary occlusion. To delineate the affected myocardial territory, an N-13 ammonia PET perfusion scan was performed for each animal in each occlusion state. Filtered backprojection (FBP) reconstruction was first applied to all CT data sets. Then, a statistical iterative reconstruction (SIR) method was applied to data sets acquired at low dose. Image voxel noise was matched between the low dose SIR and high dose FBP reconstructions. CT perfusion maps were compared among the low dose FBP, low dose SIR and high dose FBP reconstructions. Numerical simulations of a dynamic CT scan at high and low dose (20:1 ratio) were performed to quantitatively evaluate SIR and FBP performance in terms of flow map accuracy, precision, dose efficiency, and spatial resolution. Results: Forin vivo studies, the 500 mA FBP maps gave −88.4%, −96.0%, −76.7%, and −65.8% flow change in the occluded anterior region compared to the open-coronary scans (four animals). The percent changes in the 25 mA SIR maps were in good agreement, measuring −94.7%, −81.6%, −84.0%, and −72.2%. The 25 mA FBP maps gave unreliable flow measurements due to streaks caused by photon starvation (percent changes of +137.4%, +71.0%, −11.8%, and −3.5%). Agreement between 25 mA SIR and 500 mA FBP global flow was −9.7%, 8.8%, −3.1%, and 26.4%. The average variability of flow measurements in a nonoccluded region was 16.3%, 24.1%, and 937
Wu, Zheng; Zhou, Qiang; Duan, Haoyun; Wang, Xiaoran; Xiao, Jianhui; Duan, Hucheng; Li, Naiyang; Li, Chaoyang; Wan, Pengxia; Liu, Ying; Song, Yiyue; Zhou, Chenjing; Huang, Zheqian; Wang, Zhichong
2014-01-01
To construct an auto-tissue-engineered lamellar cornea (ATELC) for transplantation, based on acellular porcine corneal stroma and autologous corneal limbal explants, a dynamic culture process, which composed of a submersion culture, a perfusion culture and a dynamic air-liquid interface culture, was performed using appropriate parameters. The results showed that the ATELC-Dynamic possessed histological structure and DNA content that were similar to native lamellar cornea (NLC, p>0.05). Compared to NLC, the protein contents of zonula occludens-1, desmocollin-2 and integrin β4 in ATELC-Dynamic reached 93%, 89% and 73%, respectively. The basal cells of ATELC-Dynamic showed a better differentiation phenotype (K3-, P63+, ABCG2+) compared with that of ATELC in static air-lift culture (ATELC-Static, K3+, P63-, ABCG2-). Accordingly, the cell-cloning efficiency of ATELC-Dynamic (9.72±3.5%) was significantly higher than that of ATELC-Static (2.13±1.46%, p<0.05). The levels of trans-epithelial electrical resistance, light transmittance and areal modulus variation in ATELC-Dynamic all reached those of NLC (p>0.05). Rabbit lamellar keratoplasty showed that the barrier function of ATELC-Dynamic was intact, and there were no signs of epithelial shedding or neovascularization. Furthermore, the ATELC-Dynamic group had similar optical properties and wound healing processes compared with the NLC group. Thus, the sequential dynamic culture process that was designed according to corneal physiological characteristics could successfully reconstruct an auto-lamellar cornea with favorable morphological characteristics and satisfactory physiological function.
NASA Astrophysics Data System (ADS)
Hafkenscheid, Edith; Warners-Ruckstuhl, Karin; van Oosterhout, Cees; Bergman, Steve; Davies, J. Huw; Govers, Rob; Hochard, Cyril; Kennan, Lorcan; Ross, Malcolm; Stampfli, Gérard M.; Vérard, Christan; Webb, Peter; Wortel, Rinus
2013-04-01
Effective hydrocarbon exploration in frontier regions requires an understanding of the tectonic and thermal evolution of basins, among other parameters or conditions. This is especially challenging when high-resolution local data are lacking, requiring reasonable interpolation and extrapolation of more regional knowledge. Some of the key first-order parameters influencing the presence and preservation of an economic petroleum system are the basin's vertical motion history and its thermal and stress evolution. To quantify these parameters in a physically consistent manner over several hundred million years, an integrated lithosphere-mantle dynamics modeling approach is needed. To this purpose, we embarked on developing a 3D dynamic model for the whole earth that links surface phenomena to mantle convection and lithosphere dynamics. The project involved a close collaboration between Shell and three universities, and integration of many disciplines and techniques. University of Lausanne developed 600-0 Ma global plate reconstructions with consistently evolving plate boundaries. The 300-0 Ma period was then adapted to be used as surface boundary condition for forward mantle convection modeling by Cardiff University, producing global predictions of base lithosphere temperatures, heat flow and mantle induced vertical surface motion through time. As a last step, Utrecht University developed a method to predict the lithospheric stress field through time based on integration of these mantle modeling results with the plate reconstruction model. This approach offers predictive scenarios and grids relevant to petroleum exploration that can be validated with local geological and geophysical data.
Sharif, Behzad; Derbyshire, J. Andrew; Faranesh, Anthony Z.; Bresler, Yoram
2010-01-01
MR imaging of the human heart without explicit cardiac synchronization promises to extend the applicability of cardiac MR to a larger patient population and potentially expand its diagnostic capabilities. However, conventional non-gated imaging techniques typically suffer from low image quality or inadequate spatio-temporal resolution and fidelity. Patient-Adaptive Reconstruction and Acquisition in Dynamic Imaging with Sensitivity Encoding (PARADISE) is a highly-accelerated non-gated dynamic imaging method that enables artifact-free imaging with high spatio-temporal resolutions by utilizing novel computational techniques to optimize the imaging process. In addition to using parallel imaging, the method gains acceleration from a physiologically-driven spatio-temporal support model; hence, it is doubly accelerated. The support model is patient-adaptive, i.e., its geometry depends on dynamics of the imaged slice, e.g., subject’s heart-rate and heart location within the slice. The proposed method is also doubly adaptive as it adapts both the acquisition and reconstruction schemes. Based on the theory of time-sequential sampling, the proposed framework explicitly accounts for speed limitations of gradient encoding and provides performance guarantees on achievable image quality. The presented in-vivo results demonstrate the effectiveness and feasibility of the PARADISE method for high resolution non-gated cardiac MRI during a short breath-hold. PMID:20665794
A New Method for Reconstruction of Coronal Force-Free Magnetic Fields
NASA Astrophysics Data System (ADS)
Yi, Sibaek; Choe, Gwangson; Lim, Daye; Kim, Kap-Sung
2016-04-01
We present a new method for coronal magnetic field reconstruction based on vector magnetogram data. This method belongs to a variational method in that the magnetic energy of the system is decreased as the iteration proceeds. We employ a vector potential rather than the magnetic field vector in order to be free from the numerical divergence B problem. Whereas most methods employing three components of the magnetic field vector overspecify the boundary conditions, we only impose the normal components of magnetic field and current density as the bottom boundary conditions. Previous methods using a vector potential need to adjust the bottom boundary conditions continually, but we fix the bottom boundary conditions once and for all. To minimize the effect of the obscure lateral and top boundary conditions, we have adopted a nested grid system, which can accommodate as large as a computational domain without consuming as much computational resources. At the top boundary, we have implemented the source surface condition. We have tested our method with the analytic solution by Low & Lou (1990) as a reference. When the solution is given only at the bottom boundary, our method excels in most figures of merits devised by Schrijver et al. (2006). We have also applied our method to the active region AR 11974, in which two M class flares and a halo CME took place. Our reconstructed field shows three sigmoid structures in the lower corona and two interwound flux tubes in the upper corona. The former seem to cause the observed flares and the latter seem to be responsible for the global eruption, i.e., the CME.
Force Generation and Dynamics of Individual Cilia under External Loading
Hill, David B.; Swaminathan, Vinay; Estes, Ashley; Cribb, Jeremy; O'Brien, E. Timothy; Davis, C. William; Superfine, R.
2010-01-01
Abstract Motile cilia are unique multimotor systems that display coordination and periodicity while imparting forces to biological fluids. They play important roles in normal physiology, and ciliopathies are implicated in a growing number of human diseases. In this work we measure the response of individual human airway cilia to calibrated forces transmitted via spot-labeled magnetic microbeads. Cilia respond to applied forces by 1), a reduction in beat amplitude (up to an 85% reduction by 160–170 pN of force); 2), a decreased tip velocity proportionate to applied force; and 3), no significant change in beat frequency. Tip velocity reduction occurred in each beat direction, independently of the direction of applied force, indicating that the cilium is “driven” in both directions at all times. By applying a quasistatic force model, we deduce that axoneme stiffness is dominated by the rigidity of the microtubules, and that cilia can exert 62 ± 18 pN of force at the tip via the generation of 5.6 ± 1.6 pN/dynein head. PMID:20085719
Synchronous monitoring of muscle dynamics and muscle force for maximum isometric tetanus
NASA Astrophysics Data System (ADS)
Zakir Hossain, M.; Grill, Wolfgang
2010-03-01
Skeletal muscle is a classic example of a biological soft matter . At both macro and microscopic levels, skeletal muscle is exquisitely oriented for force generation and movement. In addition to the dynamics of contracting and relaxing muscle which can be monitored with ultrasound, variations in the muscle force are also expected to be monitored. To observe such force and sideways expansion variations synchronously for the skeletal muscle a novel detection scheme has been developed. As already introduced for the detection of sideways expansion variations of the muscle, ultrasonic transducers are mounted sideways on opposing positions of the monitored muscle. To detect variations of the muscle force, angle of pull of the monitored muscle has been restricted by the mechanical pull of the sonic force sensor. Under this condition, any variation in the time-of-flight (TOF) of the transmitted ultrasonic signals can be introduced by the variation of the path length between the transducers. The observed variations of the TOF are compared to the signals obtained by ultrasound monitoring for the muscle dynamics. The general behavior of the muscle dynamics and muscle force shows almost an identical concept. Since muscle force also relates the psychological boosting-up effects, the influence of boosting-up on muscle force and muscle dynamics can also be quantified form this study. Length-tension or force-length and force-velocity relationship can also be derived quantitatively with such monitoring.
Forces, waves and emergent dynamics during collective cell migration
NASA Astrophysics Data System (ADS)
Trepat, Xavier
2013-03-01
A broad range of biological processes such as morphogenesis, tissue regeneration, and cancer invasion depend on the collective motion of cell groups. For a group of cells to migrate cohesively, it has long been suspected that each constituent cell must exert physical forces not only upon its extracellular matrix but also upon neighboring cells. I will present novel techniques to measure these distinct force components. Using these techniques, we unveiled an unexpectedly rich physical picture in which the distribution of physical forces is dominated by heterogeneity, cooperativity, and jamming. I will show, moreover, that these essential features of inter-cellular force transmission enable the propagation of a new type of mechanical wave during tissue growth. Finally, I will demonstrate that both in epithelial and endothelial cell sheets, forces and waves are mechanically linked to cell velocities through a newly discovered emergent mechanism of innately collective cell guidance: plithotaxis.
DynamicRoots: A Software Platform for the Reconstruction and Analysis of Growing Plant Roots.
Symonova, Olga; Topp, Christopher N; Edelsbrunner, Herbert
2015-01-01
We present a software platform for reconstructing and analyzing the growth of a plant root system from a time-series of 3D voxelized shapes. It aligns the shapes with each other, constructs a geometric graph representation together with the function that records the time of growth, and organizes the branches into a hierarchy that reflects the order of creation. The software includes the automatic computation of structural and dynamic traits for each root in the system enabling the quantification of growth on fine-scale. These are important advances in plant phenotyping with applications to the study of genetic and environmental influences on growth.
ERIC Educational Resources Information Center
Gamble, Reed
1989-01-01
Discusses pupil misconceptions concerning forces. Summarizes some of Assessment of Performance Unit's findings on meaning of (1) force, (2) force and motion in one dimension and two dimensions, and (3) Newton's second law. (YP)
Dynamics of drag force for projectile impact in granular media
NASA Astrophysics Data System (ADS)
Behringer, Lauren; Stevens Bester, Cacey; Behringer, Robert
2016-11-01
We study the way in which momentum is dissipated as a free-falling projectile impacts a dense granular target. An empirical force law has been widely accepted to describe this process, defining the stopping force as the sum of depth-dependent static force and velocity-dependent inertial drag. However, a complete understanding of the stopping force, incorporating grain-scale interactions during impact, remains unresolved. Using direct force measurements by way of a photoelastic imaging technique, we explore the complex fluctuating behavior of the forces acting on the projectile decelerating through a granular medium. Our results are used to study the static drag as the projectile comes to rest, as well as its connection to the effect of the container boundary of the granular target. We additionally vary the shape of the impeding object to infer intruder-grain interactions from force measurements. Supported by Duke University Provost's Postdoctoral Program, NASA Grant NNX15AD38G, NSF-DMR-1206351.
Analysis of dynamic foot pressure distribution and ground reaction forces
NASA Astrophysics Data System (ADS)
Ong, F. R.; Wong, T. S.
2005-04-01
The purpose of this study was to assess the relationship between forces derived from in-shoe pressure distribution and GRFs during normal gait. The relationship served to demonstrate the accuracy and reliability of the in-shoe pressure sensor. The in-shoe pressure distribution from Tekscan F-Scan system outputs vertical forces and Centre of Force (COF), while the Kistler force plate gives ground reaction forces (GRFs) in terms of Fz, Fx and Fy, as well as vertical torque, Tz. The two systems were synchronized for pressure and GRFs measurements. Data was collected from four volunteers through three trials for both left and right foot under barefoot condition with the in-shoe sensor. The forces derived from pressure distribution correlated well with the vertical GRFs, and the correlation coefficient (r2) was in the range of 0.93 to 0.99. This is a result of extended calibration, which improves pressure measurement to give better accuracy and reliability. The COF from in-shoe sensor generally matched well with the force plate COP. As for the maximum vertical torque at the forefoot during toe-off, there was no relationship with the pressure distribution. However, the maximum torque was shown to give an indication of the rotational angle of the foot.
Bousige, Colin; Boţan, Alexandru; Coasne, Benoît; Ulm, Franz-Josef; Pellenq, Roland J.-M.
2015-03-21
We report an efficient atom-scale reconstruction method that consists of combining the Hybrid Reverse Monte Carlo algorithm (HRMC) with Molecular Dynamics (MD) in the framework of a simulated annealing technique. In the spirit of the experimentally constrained molecular relaxation technique [Biswas et al., Phys. Rev. B 69, 195207 (2004)], this modified procedure offers a refined strategy in the field of reconstruction techniques, with special interest for heterogeneous and disordered solids such as amorphous porous materials. While the HRMC method generates physical structures, thanks to the use of energy penalties, the combination with MD makes the method at least one order of magnitude faster than HRMC simulations to obtain structures of similar quality. Furthermore, in order to ensure the transferability of this technique, we provide rational arguments to select the various input parameters such as the relative weight ω of the energy penalty with respect to the structure optimization. By applying the method to disordered porous carbons, we show that adsorption properties provide data to test the global texture of the reconstructed sample but are only weakly sensitive to the presence of defects. In contrast, the vibrational properties such as the phonon density of states are found to be very sensitive to the local structure of the sample.
Dynamic 3D reconstructions of the heart wall from tomographic imaging
NASA Astrophysics Data System (ADS)
Lange, Joerg; von Smekal, Alexander
1994-05-01
We present a dynamic reconstruction of the left ventricle (LV) of the human heart. LV surface is represented by a set of points. The coordinates of these points are iterated by an artificial neural network while optimizing the match between the reconstruction based on these coordinates and the signal data. The input for the network are the segment's positions which represent the surface within the original data. The output is a set of real-valued coordinates quantifying the location of the LV surface points. The reconstruction is simultaneously developed in 3-D space and temporal domain. A topological constraint during training of the network gives corresponding vertices in space and time with global correctness. At any phase of the heart beat the network develops a map among the surface points which is highly ordered. This results in very regular wire-frames, that can be displayed rapidly on even small graphic workstations. Without time and third dimension this is very similar to Durbin's algorithm for solving the traveling salesman problem (TSP). To achieve a smooth representation we keep our network from developing the full TSP optimal solution.
Reconstructing monsoon dynamics on the Tibetan Plateau using ostracod shell chemistry
NASA Astrophysics Data System (ADS)
Boerner, N.; De Baere, B.; Yang, Q.; Francois, R. H. G. M.; Jochum, K. P.; Frenzel, P.; Schwalb, A.
2014-12-01
Ostracod shells have widely been used as source material for geochemical analysis of stable isotope and trace element composition in paleolimnological reconstruction of lake hydrochemistry and climate as they provide insight into past water balance and solute evolution of lakes. During five fieldtrips to the Tibetan Plateau, taking place between 2008 and 2012, we collected live and sub-recent ostracods from 333 sites. Hydrochemical parameters, such as temperature, electrical conductivity, pH as well as major and minor ion concentrations were measured at each site and show high variability between sites. Adult intact individuals from the most common ostracod taxa were selected and their shell chemistry analyzed. The trace elemental data for the living ostracods compared to the hydrological data provides a calibration dataset for further hydrological and thus climatological reconstruction. Mg/Ca, Sr/Ca and Ba/Ca ratios in ostracod shells provide information about past water temperature and salinity resulting from changes in precipitation vs. evaporation ratios and monsoon activity. Furthermore, Mn/Ca, Fe/Ca and U/Ca ratios are being explored as redox indicators to reconstruct oxygenation cycles. To reconstruct the monsoon dynamics on the Tibetan Plateau, sediment cores from different lakes on an east-west transect were taken: two long sediment cores from lakes Nam Co and Tangra Yumco, covering the past 20,000 years, and a short core from Lake Taro Co. The lakes feature an alkaline environment but show significant differences in their electrical conductivity ranging from 0.99 mS/cm (Taro Co) and 1.8 mS/cm (Nam Co) to 12 mS/cm (Tangra Yumco). The chemical composition of valves of the most common ostracod species in these lakes, Leucocytherella sinensis, was analyzed using laser ablation ICP-MS. The reconstruction provides a more extensive insight in past precipitation - evaporation balance and lake level change and provides clues about the interaction between the
A method of dose reconstruction for moving targets compatible with dynamic treatments
Rugaard Poulsen, Per; Lykkegaard Schmidt, Mai; Keall, Paul; Schjodt Worm, Esben; Fledelius, Walther; Hoffmann, Lone
2012-10-15
Purpose: To develop a method that allows a commercial treatment planning system (TPS) to perform accurate dose reconstruction for rigidly moving targets and to validate the method in phantom measurements for a range of treatments including intensity modulated radiation therapy (IMRT), volumetric arc therapy (VMAT), and dynamic multileaf collimator (DMLC) tracking. Methods: An in-house computer program was developed to manipulate Dicom treatment plans exported from a TPS (Eclipse, Varian Medical Systems) such that target motion during treatment delivery was incorporated into the plans. For each treatment, a motion including plan was generated by dividing the intratreatment target motion into 1 mm position bins and construct sub-beams that represented the parts of the treatment that were delivered, while the target was located within each position bin. For each sub-beam, the target shift was modeled by a corresponding isocenter shift. The motion incorporating Dicom plans were reimported into the TPS, where dose calculation resulted in motion including target dose distributions. For experimental validation of the dose reconstruction a thorax phantom with a moveable lung equivalent rod with a tumor insert of solid water was first CT scanned. The tumor insert was delineated as a gross tumor volume (GTV), and a planning target volume (PTV) was formed by adding margins. A conformal plan, two IMRT plans (step-and-shoot and sliding windows), and a VMAT plan were generated giving minimum target doses of 95% (GTV) and 67% (PTV) of the prescription dose (3 Gy). Two conformal fields with MLC leaves perpendicular and parallel to the tumor motion, respectively, were generated for DMLC tracking. All treatment plans were delivered to the thorax phantom without tumor motion and with a sinusoidal tumor motion. The two conformal fields were delivered with and without portal image guided DMLC tracking based on an embedded gold marker. The target dose distribution was measured with a
Modeling Multibody Stage Separation Dynamics Using Constraint Force Equation Methodology
NASA Technical Reports Server (NTRS)
Tartabini, Paul V.; Roithmayr, Carlos M.; Toniolo, Matthew D.; Karlgaard, Christopher D.; Pamadi, Bandu N.
2011-01-01
This paper discusses the application of the constraint force equation methodology and its implementation for multibody separation problems using three specially designed test cases. The first test case involves two rigid bodies connected by a fixed joint, the second case involves two rigid bodies connected with a universal joint, and the third test case is that of Mach 7 separation of the X-43A vehicle. For the first two cases, the solutions obtained using the constraint force equation method compare well with those obtained using industry- standard benchmark codes. For the X-43A case, the constraint force equation solutions show reasonable agreement with the flight-test data. Use of the constraint force equation method facilitates the analysis of stage separation in end-to-end simulations of launch vehicle trajectories
Breast reconstruction with absorbable mesh sling: dynamic infrared thermography of skin envelope
Hashimoto, Yoko; Yuasa, Takeshi; Suzuki, Yoshinori; Saisho, Hiroshi
2017-01-01
Background To immediate reconstruct ptosis breasts, we used polyglactin (Vicryl; Ethicon Inc., Somerville, NJ, USA) mesh as an inferolateral sling. However, Vicryl mesh is absorbable and losing function as a supporting structure. We doubt about the stability of the blood supply to the inferior part of the flap when it is in direct contact with inner implant. In this study, we examine the complications and the safety of the skin flap of this absorbable mesh sling (AMS) procedure. Methods The outcomes of 80 cases were examined, and the 1-year safety record of 40 cases was assessed. Complications were divided into minor complications, major complications requiring surgical intervention, and major complications requiring the reconstructive surgery to be halted. In addition, we examined the blood perfusion of the skin flap by dynamic infrared thermography (DIRT). Results Among 80 patients with AMS procedure, 73 breasts were reconstructed immediately and in one-stage. Complication outcomes are presented; there were 4 cases of minor flap necrosis (5%) and 4 of major complications resulting in surgical correction (5%). One patient required additional surgery, and the implant was moved into the musculocutaneous flap (1.3%). In 40 patients 1 year after surgery, DIRT showed significant decreased of blood perfusion in the ipsilateral inferior sites in comparison with the superior sites. Conclusions Blood perfusion was comparably insufficient in the inferior area of the reconstructed breast mound with AMS, where the pectoralis muscle could not be used to line the inside of the envelope. However, there were no severe flap complications due to ischemia. PMID:28210555
Reconstructing the Dynamics of HIV Evolution within Hosts from Serial Deep Sequence Data
Poon, Art F. Y.; Swenson, Luke C.; Bunnik, Evelien M.; Edo-Matas, Diana; Schuitemaker, Hanneke; van 't Wout, Angélique B.; Harrigan, P. Richard
2012-01-01
At the early stage of infection, human immunodeficiency virus (HIV)-1 predominantly uses the CCR5 coreceptor for host cell entry. The subsequent emergence of HIV variants that use the CXCR4 coreceptor in roughly half of all infections is associated with an accelerated decline of CD4+ T-cells and rate of progression to AIDS. The presence of a ‘fitness valley’ separating CCR5- and CXCR4-using genotypes is postulated to be a biological determinant of whether the HIV coreceptor switch occurs. Using phylogenetic methods to reconstruct the evolutionary dynamics of HIV within hosts enables us to discriminate between competing models of this process. We have developed a phylogenetic pipeline for the molecular clock analysis, ancestral reconstruction, and visualization of deep sequence data. These data were generated by next-generation sequencing of HIV RNA extracted from longitudinal serum samples (median 7 time points) from 8 untreated subjects with chronic HIV infections (Amsterdam Cohort Studies on HIV-1 infection and AIDS). We used the known dates of sampling to directly estimate rates of evolution and to map ancestral mutations to a reconstructed timeline in units of days. HIV coreceptor usage was predicted from reconstructed ancestral sequences using the geno2pheno algorithm. We determined that the first mutations contributing to CXCR4 use emerged about 16 (per subject range 4 to 30) months before the earliest predicted CXCR4-using ancestor, which preceded the first positive cell-based assay of CXCR4 usage by 10 (range 5 to 25) months. CXCR4 usage arose in multiple lineages within 5 of 8 subjects, and ancestral lineages following alternate mutational pathways before going extinct were common. We observed highly patient-specific distributions and time-scales of mutation accumulation, implying that the role of a fitness valley is contingent on the genotype of the transmitted variant. PMID:23133358
Bai, Fengjun; Chew, Chee-Meng
2013-01-01
Human muscle force estimation is important in biomechanics studies, sports and assistive devices fields. Therefore, it is essential to develop an efficient algorithm to estimate force exerted by muscles. The purpose of this study is to predict force/torque exerted by muscles under dynamic muscle contractions based on continuous wavelet transform (CWT) and artificial neural networks (ANN) approaches. Mean frequency (MF) of the surface electromyography (EMG) signals power spectrum was calculated from CWT. ANN models were trained to derive the MF-force relationships from the subset of EMG signals and the measured forces. Then we use the networks to predict the individual muscle forces for different muscle groups. Fourteen healthy subjects (10 males and 4 females) were voluntarily recruited in this study. EMG signals were collected from the biceps brachii, triceps, hamstring and quadriceps femoris muscles to evaluate the proposed method. Root mean square errors (RMSE) and correlation coefficients between the predicted forces and measured actual forces were calculated.
Neely, Kristina A; Coombes, Stephen A; Planetta, Peggy J; Vaillancourt, David E
2013-03-01
A central topic in sensorimotor neuroscience is the static-dynamic dichotomy that exists throughout the nervous system. Previous work examining motor unit synchronization reports that the activation strategy and timing of motor units differ for static and dynamic tasks. However, it remains unclear whether segregated or overlapping blood-oxygen-level-dependent (BOLD) activity exists in the brain for static and dynamic motor control. This study compared the neural circuits associated with the production of static force to those associated with the production of dynamic force pulses. To that end, healthy young adults (n = 17) completed static and dynamic precision grip force tasks during functional magnetic resonance imaging (fMRI). Both tasks activated core regions within the visuomotor network, including primary and sensory motor cortices, premotor cortices, multiple visual areas, putamen, and cerebellum. Static force was associated with unique activity in a right-lateralized cortical network including inferior parietal lobe, ventral premotor cortex, and dorsolateral prefrontal cortex. In contrast, dynamic force was associated with unique activity in left-lateralized and midline cortical regions, including supplementary motor area, superior parietal lobe, fusiform gyrus, and visual area V3. These findings provide the first neuroimaging evidence supporting a lateralized pattern of brain activity for the production of static and dynamic precision grip force.
Flight Dynamics of Flexible Aircraft with Aeroelastic and Inertial Force Interactions
NASA Technical Reports Server (NTRS)
Nguyen, Nhan T.; Tuzcu, Ilhan
2009-01-01
This paper presents an integrated flight dynamic modeling method for flexible aircraft that captures coupled physics effects due to inertial forces, aeroelasticity, and propulsive forces that are normally present in flight. The present approach formulates the coupled flight dynamics using a structural dynamic modeling method that describes the elasticity of a flexible, twisted, swept wing using an equivalent beam-rod model. The structural dynamic model allows for three types of wing elastic motion: flapwise bending, chordwise bending, and torsion. Inertial force coupling with the wing elasticity is formulated to account for aircraft acceleration. The structural deflections create an effective aeroelastic angle of attack that affects the rigid-body motion of flexible aircraft. The aeroelastic effect contributes to aerodynamic damping forces that can influence aerodynamic stability. For wing-mounted engines, wing flexibility can cause the propulsive forces and moments to couple with the wing elastic motion. The integrated flight dynamics for a flexible aircraft are formulated by including generalized coordinate variables associated with the aeroelastic-propulsive forces and moments in the standard state-space form for six degree-of-freedom flight dynamics. A computational structural model for a generic transport aircraft has been created. The eigenvalue analysis is performed to compute aeroelastic frequencies and aerodynamic damping. The results will be used to construct an integrated flight dynamic model of a flexible generic transport aircraft.
Reconstruction of an input function from a dynamic PET water image using multiple tissue curves
NASA Astrophysics Data System (ADS)
Kudomi, Nobuyuki; Maeda, Yukito; Yamamoto, Yuka; Nishiyama, Yoshihiro
2016-08-01
Quantification of cerebral blood flow (CBF) is important for the understanding of normal and pathologic brain physiology. When CBF is assessed using PET with {{\\text{H}}2} 15O or C15O2, its calculation requires an arterial input function, which generally requires invasive arterial blood sampling. The aim of the present study was to develop a new technique to reconstruct an image derived input function (IDIF) from a dynamic {{\\text{H}}2} 15O PET image as a completely non-invasive approach. Our technique consisted of using a formula to express the input using tissue curve with rate constant parameter. For multiple tissue curves extracted from the dynamic image, the rate constants were estimated so as to minimize the sum of the differences of the reproduced inputs expressed by the extracted tissue curves. The estimated rates were used to express the inputs and the mean of the estimated inputs was used as an IDIF. The method was tested in human subjects (n = 29) and was compared to the blood sampling method. Simulation studies were performed to examine the magnitude of potential biases in CBF and to optimize the number of multiple tissue curves used for the input reconstruction. In the PET study, the estimated IDIFs were well reproduced against the measured ones. The difference between the calculated CBF values obtained using the two methods was small as around <8% and the calculated CBF values showed a tight correlation (r = 0.97). The simulation showed that errors associated with the assumed parameters were <10%, and that the optimal number of tissue curves to be used was around 500. Our results demonstrate that IDIF can be reconstructed directly from tissue curves obtained through {{\\text{H}}2} 15O PET imaging. This suggests the possibility of using a completely non-invasive technique to assess CBF in patho-physiological studies.
Analysis of limit forces on the vehicle wheels using an algorithm of Dynamic Square Method
NASA Astrophysics Data System (ADS)
Brukalski, M.
2016-09-01
This article presents a method named as Dynamic Square Method (DSM) used for dynamic analysis of a vehicle equipped with a four wheel drive system. This method allows determination of maximum (limit) forces acting on the wheels. Here, the maximum longitudinal forces acting on the wheels are assumed and then used to predict whether they can be achieved by a specific dynamic motion or whether the actual friction forces under a given wheel is large enough to transfer lateral forces. For the analysis of DSM a four wheel vehicle model is used. On the basis of this characteristic it is possible to determine the maximum longitudinal force acting on the wheels of the given axle depending on the lateral acceleration of the vehicle. The results of this analysis may be useful in the development of a control algorithm used for example in active differentials.
Rapid acceleration in dogs: ground forces and body posture dynamics.
Walter, Rebecca M; Carrier, David R
2009-06-01
Because the ability to accelerate rapidly is crucial to the survival and reproductive fitness of most terrestrial animals, it is important to understand how the biomechanics of rapid acceleration differs from that of steady-state locomotion. Here we compare rapid acceleration with high-speed galloping in dogs to investigate the ways in which body and limb posture and ground forces are altered to produce effective acceleration. Seven dogs were videotaped at 250 Hz as they performed ;maximum effort' accelerations, starting in a standing position on a force plate and one and two strides before it. These dogs began accelerations by rapidly flexing their ankles and knees as they dropped into a crouch. The crouched posture was maintained in the first accelerating stride such that the ankle and knee were significantly more flexed than during steady high-speed galloping. The hindlimb was also significantly more retracted over the first stance period than during high-speed galloping. Ground forces differed from steady-state locomotion in that rapidly accelerating dogs supported only 43% of their body weight with the forelimbs, compared with 56-64% in steady-state locomotion. The hindlimbs applied greater peak accelerating forces than the forelimbs, but the forelimbs contributed significantly to the dogs' acceleration by producing 43% of the total propulsive impulse. Kinematically, rapid acceleration differs from steady-state galloping in that the limbs are more flexed and more retracted, while the back undergoes greater pitching movement. Ground reaction forces also differ significantly from steady-state galloping in that almost no decelerating forces are applied while propulsive force impulses are three to six times greater.
Dynamics of bow-tie shaped bursting: Forced pendulum with dynamic feedback
NASA Astrophysics Data System (ADS)
Hongray, Thotreithem; Balakrishnan, Janaki
2016-12-01
A detailed study is performed on the parameter space of the mechanical system of a driven pendulum with damping and constant torque under feedback control. We report an interesting bow-tie shaped bursting oscillatory behaviour, which is exhibited for small driving frequencies, in a certain parameter regime, which has not been reported earlier in this forced system with dynamic feedback. We show that the bursting oscillations are caused because of a transition of the quiescent state to the spiking state by a saddle-focus bifurcation, and because of another saddle-focus bifurcation, which leads to cessation of spiking, bringing the system back to the quiescent state. The resting period between two successive bursts (Trest) is estimated analytically.
Dynamics of bow-tie shaped bursting: Forced pendulum with dynamic feedback.
Hongray, Thotreithem; Balakrishnan, Janaki
2016-12-01
A detailed study is performed on the parameter space of the mechanical system of a driven pendulum with damping and constant torque under feedback control. We report an interesting bow-tie shaped bursting oscillatory behaviour, which is exhibited for small driving frequencies, in a certain parameter regime, which has not been reported earlier in this forced system with dynamic feedback. We show that the bursting oscillations are caused because of a transition of the quiescent state to the spiking state by a saddle-focus bifurcation, and because of another saddle-focus bifurcation, which leads to cessation of spiking, bringing the system back to the quiescent state. The resting period between two successive bursts (Trest) is estimated analytically.
Dynamic measurement of the force required to move a liquid drop on a solid surface.
Pilat, D W; Papadopoulos, P; Schäffel, D; Vollmer, D; Berger, R; Butt, H-J
2012-12-11
We measured the forces required to slide sessile drops over surfaces. The forces were measured by means of a vertical deflectable capillary stuck in the drop. The drop adhesion force instrument (DAFI) allowed the investigation of the dynamic lateral adhesion force of water drops of 0.1 to 2 μL volume at defined velocities. On flat PDMS surfaces, the dynamic lateral adhesion force increases linearly with the diameter of the contact area of the solid-liquid interface and linearly with the sliding velocity. The movement of the drop relative to the surfaces enabled us to resolve the pinning of the three-phase contact line to individual defects. We further investigated a 3D superhydrophobic pillar array. The depinning of the receding part of the rim of the drop occurred almost simultaneously from four to five pillars, giving rise to peaks in the lateral adhesion force.
NASA Astrophysics Data System (ADS)
Ting, Samuel T.
The research presented in this work seeks to develop, validate, and deploy practical techniques for improving diagnosis of cardiovascular disease. In the philosophy of biomedical engineering, we seek to identify an existing medical problem having significant societal and economic effects and address this problem using engineering approaches. Cardiovascular disease is the leading cause of mortality in the United States, accounting for more deaths than any other major cause of death in every year since 1900 with the exception of the year 1918. Cardiovascular disease is estimated to account for almost one-third of all deaths in the United States, with more than 2150 deaths each day, or roughly 1 death every 40 seconds. In the past several decades, a growing array of imaging modalities have proven useful in aiding the diagnosis and evaluation of cardiovascular disease, including computed tomography, single photon emission computed tomography, and echocardiography. In particular, cardiac magnetic resonance imaging is an excellent diagnostic tool that can provide within a single exam a high quality evaluation of cardiac function, blood flow, perfusion, viability, and edema without the use of ionizing radiation. The scope of this work focuses on the application of engineering techniques for improving imaging using cardiac magnetic resonance with the goal of improving the utility of this powerful imaging modality. Dynamic cine imaging, or the capturing of movies of a single slice or volume within the heart or great vessel region, is used in nearly every cardiac magnetic resonance imaging exam, and adequate evaluation of cardiac function and morphology for diagnosis and evaluation of cardiovascular disease depends heavily on both the spatial and temporal resolution as well as the image quality of the reconstruction cine images. This work focuses primarily on image reconstruction techniques utilized in cine imaging; however, the techniques discussed are also relevant to
New jacking system resolves dynamic forces in 400-ft jack up
Chevallier, J.; Turner, L.
1984-08-27
This article describes the design and operation of Trident IX a successfully applied jack up system. A summary of Trident IX's two years of operation in the Arabian Gulf and offshore West Africa is presented. The system is compared to conventional jacking systems in terms of design, operation, costs and safety. Dynamic forces at 400 ft. water depths are summarized, and design of the legs to withstand these dynamic forces and accomodate the new system are explained. Features are listed.
Dynamic Image Forces Near a Metal Surface and the Point-Charge Motion
ERIC Educational Resources Information Center
Gabovich, A. M.; Voitenko, A. I.
2012-01-01
The problem of charge motion governed by image force attraction near a plane metal surface is considered and solved self-consistently. The temporal dispersion of metal dielectric permittivity makes the image forces dynamic and, hence, finite, contrary to the results of the conventional approach. Therefore, the maximal attainable velocity turns out…
Quantification of in-contact probe-sample electrostatic forces with dynamic atomic force microscopy
NASA Astrophysics Data System (ADS)
Balke, Nina; Jesse, Stephen; Carmichael, Ben; Baris Okatan, M.; Kravchenko, Ivan I.; Kalinin, Sergei V.; Tselev, Alexander
2017-02-01
Atomic force microscopy (AFM) methods utilizing resonant mechanical vibrations of cantilevers in contact with a sample surface have shown sensitivities as high as few picometers for detecting surface displacements. Such a high sensitivity is harnessed in several AFM imaging modes. Here, we demonstrate a cantilever-resonance-based method to quantify electrostatic forces on a probe in the probe-sample junction in the presence of a surface potential or when a bias voltage is applied to the AFM probe. We find that the electrostatic forces acting on the probe tip apex can produce signals equivalent to a few pm of surface displacement. In combination with modeling, the measurements of the force were used to access the strength of the electrical field at the probe tip apex in contact with a sample. We find an evidence that the electric field strength in the junction can reach ca. 1 V nm-1 at a bias voltage of a few volts and is limited by non-ideality of the tip-sample contact. This field is sufficiently strong to significantly influence material states and kinetic processes through charge injection, Maxwell stress, shifts of phase equilibria, and reduction of energy barriers for activated processes. Besides, the results provide a baseline for accounting for the effects of local electrostatic forces in electromechanical AFM measurements as well as offer additional means to probe ionic mobility and field-induced phenomena in solids.
Quantification of In-Contact Probe-Sample Electrostatic Forces with Dynamic Atomic Force Microscopy.
Balke, Nina; Jesse, Stephen; Carmichael, Ben; Okatan, M; Kravchenko, Ivan; Kalinin, Sergei; Tselev, Alexander
2016-12-13
Atomic Force Microscopy (AFM) methods utilizing resonant mechanical vibrations of cantilevers in contact with a sample surface have shown sensitivities as high as few picometers for detecting surface displacements. Such a high sensitivity is harnessed in several AFM imaging modes. Here, we demonstrate a cantilever-resonance-based method to quantify electrostatic forces on a probe in the probe-sample junction in the presence of a surface potential or when a bias voltage is applied to the AFM probe. We find that the electrostatic forces acting on the probe tip apex can produce signals equivalent to a few pm of surface displacement. In combination with modeling, the measurements of the force were used to access the strength of the electrical field at the probe tip apex in contact with a sample. We find an evidence that the electric field strength in the junction can reach ca. 1 V/nm at a bias voltage of a few volts and is limited by non-ideality of the tip-sample contact. This field is sufficiently strong to significantly influence material states and kinetic processes through charge injection, Maxwell stress, shifts of phase equilibria, and reduction of energy barriers for activated processes. Besides, the results provide a baseline for accounting for the effects of local electrostatic forces in electromechanical AFM measurements as well as offer additional means to probe ionic mobility and field-induced phenomena in solids.
Quantification of in-contact probe-sample electrostatic forces with dynamic atomic force microscopy.
Balke, Nina; Jesse, Stephen; Carmichael, Ben; Okatan, M Baris; Kravchenko, Ivan I; Kalinin, Sergei V; Tselev, Alexander
2017-01-04
Atomic force microscopy (AFM) methods utilizing resonant mechanical vibrations of cantilevers in contact with a sample surface have shown sensitivities as high as few picometers for detecting surface displacements. Such a high sensitivity is harnessed in several AFM imaging modes. Here, we demonstrate a cantilever-resonance-based method to quantify electrostatic forces on a probe in the probe-sample junction in the presence of a surface potential or when a bias voltage is applied to the AFM probe. We find that the electrostatic forces acting on the probe tip apex can produce signals equivalent to a few pm of surface displacement. In combination with modeling, the measurements of the force were used to access the strength of the electrical field at the probe tip apex in contact with a sample. We find an evidence that the electric field strength in the junction can reach ca. 1 V nm(-1) at a bias voltage of a few volts and is limited by non-ideality of the tip-sample contact. This field is sufficiently strong to significantly influence material states and kinetic processes through charge injection, Maxwell stress, shifts of phase equilibria, and reduction of energy barriers for activated processes. Besides, the results provide a baseline for accounting for the effects of local electrostatic forces in electromechanical AFM measurements as well as offer additional means to probe ionic mobility and field-induced phenomena in solids.
Force models for particle-dynamics simulations of granular materials
Walton, O.R.
1994-12-01
Engineering-mechanics contact models are utilized to describe the inelastic, frictional interparticle forces acting in dry granular systems. Simple analyses based on one-dimensional chains are utilized to illustrate wave propagation phenomena in dense and dilute discrete particulates. The variation of restitution coefficient with impact velocity is illustrated for a variety of viscous and hysteretic normal force models. The effects of interparticle friction on material strength in discrete-particle simulations are much closer to measured values than are theories that do not allow article rotations.
4D maximum a posteriori reconstruction in dynamic SPECT using a compartmental model-based prior.
Kadrmas, D J; Gullberg, G T
2001-05-01
A 4D ordered-subsets maximum a posteriori (OSMAP) algorithm for dynamic SPECT is described which uses a temporal prior that constrains each voxel's behaviour in time to conform to a compartmental model. No a priori limitations on kinetic parameters are applied; rather, the parameter estimates evolve as the algorithm iterates to a solution. The estimated parameters and time-activity curves are used within the reconstruction algorithm to model changes in the activity distribution as the camera rotates, avoiding artefacts due to inconsistencies of data between projection views. This potentially allows for fewer, longer-duration scans to be used and may have implications for noise reduction. The algorithm was evaluated qualitatively using dynamic 99mTc-teboroxime SPECT scans in two patients, and quantitatively using a series of simulated phantom experiments. The OSMAP algorithm resulted in images with better myocardial uniformity and definition, gave time-activity curves with reduced noise variations, and provided wash-in parameter estimates with better accuracy and lower statistical uncertainty than those obtained from conventional ordered-subsets expectation-maximization (OSEM) processing followed by compartmental modelling. The new algorithm effectively removed the bias in k21 estimates due to inconsistent projections for sampling schedules as slow as 60 s per timeframe, but no improvement in wash-out parameter estimates was observed in this work. The proposed dynamic OSMAP algorithm provides a flexible framework which may benefit a variety of dynamic tomographic imaging applications.
Zimmerman, William B
2005-10-05
The hypothesis that frequency and amplitude response can be used in a complicated metabolic pathway kinetics model for optimal parameter estimation, as speculated by its successful prior usage for a mechanical oscillator and a heterogeneous chemical system, is tested here. Given the complexity of the glycolysis model of yeast chosen, this question is limited to three kinetics parameters of the 87 in the in vitro model developed in the literature. The direct application of the approach, used with the uninformed selection of operating conditions for the oscillation of external glucose concentration, led to miring the data assimilation process in local minima. Application of linear systems theory, however, identified two natural resonant frequencies that, when excited by external forced oscillations of the same frequency, result in the expression of many harmonics in the Fourier spectra, that is, information-rich experiments. A single such information-rich experiment at one of the resonant frequencies was sufficient to break away from the local minima to find the optimum kinetics parameter estimates. The resonant frequencies themselves represent oscillation modes in glycolysis akin to those previously observed. Furthermore, operation of the bioreactor with large amplitude oscillations of glucose feed (25%) leads to enhanced ethanol average yield by 1.6% at the resonant frequency.
Toney, Megan E; Chang, Young-Hui
2013-12-01
Human walking dynamics are typically framed in the context of mechanics and energetics rather than in the context of neuromuscular control. Dynamic walking principles describe one helpful theoretical approach to characterize efficient human walking mechanics over many steps. These principles do not, however, address how such walking is controlled step-by-step despite small perturbations from natural variability. Our purpose was to identify neuromechanical control strategies used to achieve consistent and robust locomotion despite natural step-to-step force variability. We used the uncontrolled manifold concept to test whether human walkers select combinations of leading and trailing leg-forces that generate equivalent net-force trajectories during step-to-step transitions. Subjects selected leading and trailing leg-force combinations that generated consistent vertical net-force during step-to-step transitions. We conclude that vertical net-force is an implicit neuromechanical goal of human walking whose trajectory is stabilized for consistent step-to-step transitions, which agrees with the principles of dynamic walking. In contrast, inter-leg-force combinations modulated anterior-posterior net-force trajectories with each step to maintain constant walking speed, indicating that a consistent anterior-posterior net-force trajectory is not an implicit goal of walking. For a more complete picture of hierarchical locomotor control, we also tested whether each individual leg-force trajectory was stabilized through the selection of leg-force equivalent joint-torque combinations. The observed consistent vertical net-force trajectory was achieved primarily through the selection of joint-torque combinations that modulated trailing leg-force during step-to-step transitions. We conclude that humans achieve robust walking by harnessing inherent motor abundance of the joints and legs to maintain consistent step-by-step walking performance.
Rattei, Thomas; Makse, Hernán A.
2013-01-01
Cellular functions are based on the complex interplay of proteins, therefore the structure and dynamics of these protein-protein interaction (PPI) networks are the key to the functional understanding of cells. In the last years, large-scale PPI networks of several model organisms were investigated. A number of theoretical models have been developed to explain both the network formation and the current structure. Favored are models based on duplication and divergence of genes, as they most closely represent the biological foundation of network evolution. However, studies are often based on simulated instead of empirical data or they cover only single organisms. Methodological improvements now allow the analysis of PPI networks of multiple organisms simultaneously as well as the direct modeling of ancestral networks. This provides the opportunity to challenge existing assumptions on network evolution. We utilized present-day PPI networks from integrated datasets of seven model organisms and developed a theoretical and bioinformatic framework for studying the evolutionary dynamics of PPI networks. A novel filtering approach using percolation analysis was developed to remove low confidence interactions based on topological constraints. We then reconstructed the ancient PPI networks of different ancestors, for which the ancestral proteomes, as well as the ancestral interactions, were inferred. Ancestral proteins were reconstructed using orthologous groups on different evolutionary levels. A stochastic approach, using the duplication-divergence model, was developed for estimating the probabilities of ancient interactions from today's PPI networks. The growth rates for nodes, edges, sizes and modularities of the networks indicate multiplicative growth and are consistent with the results from independent static analysis. Our results support the duplication-divergence model of evolution and indicate fractality and multiplicative growth as general properties of the PPI
NASA Astrophysics Data System (ADS)
Tandeo, Pierre; Ailliot, Pierre; Ruiz, Juan; Hannart, Alexis; Chapron, Bertrand; Cuzol, Anne; Monbet, Valérie; Le Goff, Clément; Lguensat, Redouane; Fablet, Ronan
2015-04-01
Nowadays, ocean, atmosphere and climate sciences face a deluge of data pouring from space, in situ monitoring as well as numerical simulations. The availability of these different data sources offer new opportunities, still largely underexploited, to improve the understanding, modeling and reconstruction of geophysical dynamics. The classical way to reconstruct the space-time dynamics of a geophysical system from observation series relies on data assimilation methods, which perform multiple runs of the known dynamical model. This classical framework may have severe limitations including its computational cost, the lack of consistency of the model with respect to the observed data, modeling uncertainties. Here, we explore an alternative approach and develop a fully data-driven framework. We assume that a representative catalog of examples of the space-time dynamics of the geophysical system of interest is available. Depending on the case-study, such a catalog may be issued from observations as well as numerical simulations. Based on this catalog, we combine machine learning and statistical sampling to address data assimilation as follows. The key idea is to design a nonparametric sampler of the dynamics of the considered geophysical system from the available catalog. We focus in this work on analog (also referred to as nearest-neighbor) methods. They provide us the mean for sampling forecast members with no online evaluation of the physical model. The combination of these members with the observations resorts to the classical stochastic filtering techniques, such as ensemble Kalman or particle filters and smoothers. As a proof concept, we demonstrate the relevance of the proposed data assimilation method for Lorenz-63 and Lorenz-96 chaotic dynamics. We compare different nonparametric sampling schemes as well as stochastic filters and evaluate how the size of the catalog and the dimensionality of the system affect assimilation performance. We show that our
The Role of Forcing and Internal Dynamics in explaining the 'Medieval Climate Anomaly'
NASA Technical Reports Server (NTRS)
Goossee, Hugues; Crespin, Elisabeth; Dubinkina, Svetlana; Loutre, Marie-France; Mann, Michael E.; Renssen, Hans; Shindell, Drew
2012-01-01
Proxy reconstructions suggest that peak global temperature during the past warm interval known as the Medieval Climate Anomaly (MCA, roughly 950-1250 AD) has been exceeded only during the most recent decades. To better understand the origin of this warm period, we use model simulations constrained by data assimilation establishing the spatial pattern of temperature changes that is most consistent with forcing estimates, model physics and the empirical information contained in paleoclimate proxy records. These numerical experiments demonstrate that the reconstructed spatial temperature pattern of the MCA can be explained by a simple thermodynamical response of the climate system to relatively weak changes in radiative forcing combined with a modification of the atmospheric circulation, displaying some similarities with the positive phase of the so-called Arctic Oscillation, and with northward shifts in the position of the Gulf Stream and Kuroshio currents. The mechanisms underlying the MCA are thus quite different from anthropogenic mechanisms responsible for modern global warming.
Masuzawa, Toru; Ohta, Akiko; Tanaka, Nobuatu; Qian, Yi; Tsukiya, Tomonori
2009-01-01
The effect of the hydraulic force on magnetically levitated (maglev) pumps should be studied carefully to improve the suspension performance and the reliability of the pumps. A maglev centrifugal pump, developed at Ibaraki University, was modeled with 926 376 hexahedral elements for computational fluid dynamics (CFD) analyses. The pump has a fully open six-vane impeller with a diameter of 72.5 mm. A self-bearing motor suspends the impeller in the radial direction. The maximum pressure head and flow rate were 250 mmHg and 14 l/min, respectively. First, a steady-state analysis was performed using commercial code STAR-CD to confirm the model's suitability by comparing the results with the real pump performance. Second, transient analysis was performed to estimate the hydraulic force on the levitated impeller. The impeller was rotated in steps of 1 degrees using a sliding mesh. The force around the impeller was integrated at every step. The transient analysis revealed that the direction of the radial force changed dynamically as the vane's position changed relative to the outlet port during one circulation, and the magnitude of this force was about 1 N. The current maglev pump has sufficient performance to counteract this hydraulic force. Transient CFD analysis is not only useful for observing dynamic flow conditions in a centrifugal pump but is also effective for obtaining information about the levitation dynamics of a maglev pump.
Exploring the Contribution of Collective Motions to the Dynamics of Forced-Unfolding in Tubulin
Joshi, Harshad; Momin, Farhana; Haines, Kelly E.; Dima, Ruxandra I.
2010-01-01
Abstract Decomposition of the intrinsic dynamics of proteins into collective motions among distant regions of the protein structure provides a physically appealing approach that couples the dynamics of the system with its functional role. The cellular functions of microtubules (an essential component of the cytoskeleton in all eukaryotic cells) depend on their dynamic instability, which is altered by various factors among which applied forces are central. To shed light on the coupling between forces and the dynamic instability of microtubules, we focus on the investigation of the response of the microtubule subunits (tubulin) to applied forces. We address this point by adapting an approach designed to survey correlations for the equilibrium dynamics of proteins to the case of correlations for proteins forced-dynamics. The resulting collective motions in tubulin have a number of functional implications, such as the identification of long-range couplings with a role in blocking the dynamic instability of microtubules. A fundamental implication of our study for the life of a cell is that, to increase the likelihood of unraveling of large cytoskeletal filaments under physiological forces, molecular motors must use a combination of pulling and torsion rather than just pulling. PMID:20159162
Khamoui, Andy V; Brown, Lee E; Nguyen, Diamond; Uribe, Brandon P; Coburn, Jared W; Noffal, Guillermo J; Tran, Tai
2011-01-01
Previous research has investigated the force-time curve characteristics of isometric and dynamic muscle actions; however, few studies have addressed their relationship to dynamic exercise velocity-time variables. The purpose of this study was to investigate relationships between velocity-time characteristics (high pull and vertical jump peak velocity and rate of velocity development [HPPV, HPRVD, VJPV, VJRVD]), force-time characteristics (isometric peak force [IsoPF], body mass adjusted isometric peak force [IsoPF/BM], isometric rate of force development at different millisecond windows [IsoRFD50-250], dynamic peak force [HPPF], body mass adjusted dynamic peak force [HPPF/BM]), and vertical jump height (VJHeight). Nineteen recreationally trained men (age 23.89 ± 2.92 yr; height 176.32 ± 7.06 cm; mass 78.76 ± 16.50 kg) completed 2 testing sessions. The first session consisted of 3 isometric mid-thigh pulls on a force plate with each repetition held for 3 seconds. On the second testing session, subjects completed 3 dynamic mid-thigh high pulls with 30% IsoPF followed by 3 vertical jumps on a force plate. The HPRVD correlated with IsoRFD50 (r = 0.52) and IsoRFD100 (r = 0.49). The HPPV correlated with IsoPF/BM (r = -0.60), IsoRFD50 (r = 0.56), and IsoRFD100 (r = 0.56). The VJHeight correlated with IsoPF/BM (r = 0.61), whereas VJPV correlated with IsoPF/BM (r = 0.62). These correlations suggest that explosive isometric force production within 50 to 100 milliseconds may influence the ability to accelerate an implement or body and attain high velocity, albeit in a moderate fashion. In addition, body mass adjusted strength may positively influence vertical jump parameters.
DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data
2012-01-01
Background Modeling dynamic regulatory networks is a major challenge since much of the protein-DNA interaction data available is static. The Dynamic Regulatory Events Miner (DREM) uses a Hidden Markov Model-based approach to integrate this static interaction data with time series gene expression leading to models that can determine when transcription factors (TFs) activate genes and what genes they regulate. DREM has been used successfully in diverse areas of biological research. However, several issues were not addressed by the original version. Results DREM 2.0 is a comprehensive software for reconstructing dynamic regulatory networks that supports interactive graphical or batch mode. With version 2.0 a set of new features that are unique in comparison with other softwares are introduced. First, we provide static interaction data for additional species. Second, DREM 2.0 now accepts continuous binding values and we added a new method to utilize TF expression levels when searching for dynamic models. Third, we added support for discriminative motif discovery, which is particularly powerful for species with limited experimental interaction data. Finally, we improved the visualization to support the new features. Combined, these changes improve the ability of DREM 2.0 to accurately recover dynamic regulatory networks and make it much easier to use it for analyzing such networks in several species with varying degrees of interaction information. Conclusions DREM 2.0 provides a unique framework for constructing and visualizing dynamic regulatory networks. DREM 2.0 can be downloaded from: www.sb.cs.cmu.edu/drem. PMID:22897824
Structure and Dynamics of Dinucleosomes Assessed by Atomic Force Microscopy
Filenko, Nina A.; Palets, Dmytro B.; Lyubchenko, Yuri L.
2012-01-01
Dynamics of nucleosomes and their interactions are important for understanding the mechanism of chromatin assembly. Internucleosomal interaction is required for the formation of higher-order chromatin structures. Although H1 histone is critically involved in the process of chromatin assembly, direct internucleosomal interactions contribute to this process as well. To characterize the interactions of nucleosomes within the nucleosome array, we designed a dinucleosome and performed direct AFM imaging. The analysis of the AFM data showed dinucleosomes are very dynamic systems, enabling the nucleosomes to move in a broad range along the DNA template. Di-nucleosomes in close proximity were observed, but their populationmore » was low. The use of the zwitterionic detergent, CHAPS, increased the dynamic range of the di-nucleosome, facilitating the formation of tight di-nucleosomes. The role of CHAPS and similar natural products in chromatin structure and dynamics is also discussed.« less
Contact force history and dynamic response due to the impact of a soft projectile
NASA Technical Reports Server (NTRS)
Grady, J. E.
1988-01-01
A series of ballistic impact tests on several different instrumented targets was performed to characterize the dynamic contact force history resulting from the impact of a compliant projectile. The results show that the variation of contact force history with impact velocity does not follow the trends predicted by classical impact models. An empirical model was therefore developed to describe this behavior. This model was then used in a finite-element analysis to estimate the force history and calculate the resulting dynamic strain response in a transversely impacted composite laminate.
Microscopic Theory for the Role of Attractive Forces in the Dynamics of Supercooled Liquids.
Dell, Zachary E; Schweizer, Kenneth S
2015-11-13
We formulate a microscopic, no adjustable parameter, theory of activated relaxation in supercooled liquids directly in terms of the repulsive and attractive forces within the framework of pair correlations. Under isochoric conditions, attractive forces can nonperturbatively modify slow dynamics, but at high enough density their influence vanishes. Under isobaric conditions, attractive forces play a minor role. High temperature apparent Arrhenius behavior and density-temperature scaling are predicted. Our results are consistent with recent isochoric simulations and isobaric experiments on a deeply supercooled molecular liquid. The approach can be generalized to treat colloidal gelation and glass melting, and other soft matter slow dynamics problems.
Hattori, Y; Ono, Y; Shimaoka, M; Hiruta, S; Kamijima, M; Shibata, E; Ichihara, G; Ando, S; Villaneuva, M B; Takeuchi, Y
1996-06-01
A laboratory study was undertaken to determine the postural and physical characteristics and subjective stress during dynamic lifting of a usual load (10 kg) compared with during isometric lifting. The authors also aimed to clarify the effects of asymmetric lifting on these parameters. The subjects were thirteen male college students. They were asked to lift a box weighing 10 kg. They performed sixteen different lifting tasks from the floor to a height of 71 cm, involving a combination of three independent factors: two lifting modes (isometric lifting and dynamic lifting), four lifting angles in relation to the sagittal plane (sagittal plane, right 45 degree, right 90 degree and left 90 degree planes) and two lifting postures (squat and stoop). For each lifting task, strengths or forces and ground reaction forces were measured. At the end of each task, the authors asked the subjects to rate their perceived exertion (RPE) during lifting at ten sites of the body. Angle factor had a significant effect on isometric strengths and dynamic peak forces. Isometric strengths during the maximum 3 s were highest in lifting in the right 45 degree plane, followed by that in the sagittal plane, while those in the right 90 degree and left 90 degree planes were the lowest. However, peak forces in dynamic lifting were the highest in the lifting in the sagittal plane, followed by that in the right 45 degree plane, while those in the right 90 degree and left 90 degree planes were the lowest. Postural factor had a significant effect on height at peak force, which is higher in squat lifting than in stoop lifting. RPEs for the left arm, the backs and the right whole body in isometric lifting were significantly higher than in dynamic lifting of 10 kg. There were remarkably high RPEs for the ipsilateral thigh to the box in right 90 degree and left 90 degree planes during both isometric and dynamic liftings. Locations of the resultant force consisting of three component forces on the force
Vertical and lateral force mapping on the Si(111)-(7×7) surface by dynamic force microscopy
NASA Astrophysics Data System (ADS)
Sugimoto, Yoshiaki; Namikawa, Takashi; Miki, Koutaro; Abe, Masayuki; Morita, Seizo
2008-05-01
The topographic image of dynamic force microscopy (DFM) keeping the frequency shift (Δfz) constant at tiny cantilever oscillation amplitudes corresponds to the constant-vertical force (Fz) gradient surface, while the interpretation becomes complicated at larger oscillation amplitudes. We discuss how Fz and the potential energy (U) act on the tip during DFM topographic scan at various cantilever oscillation amplitudes by measuring the Δfz map on the Si(111)-(7×7) surface at room temperature. The Δfz map is numerically converted into Fz and U maps. DFM topographic curves at various cantilever oscillation amplitudes are numerically derived by using the experimentally obtained Fz map. In addition, we discuss how the lateral force (Fx) acts on the tip at various tip-surface distances on various surface sites by an Fx map converted from a U map. The positions at which Fx becomes zero are identified as U minimum sites, such as the top of adatom sites, and U maximum sites (equilibrium positions of Fx ), such as the center positions among three center adatoms. The tip deviated from these sites is then laterally attracted toward the U minimum sites. It is also demonstrated that lateral force microscopy performed at 1Å cantilever oscillation enables direct measurement of the lateral force gradient by numerically deriving the frequency shift (Δfx) caused by Fx .
Application of largest Lyapunov exponent analysis on the studies of dynamics under external forces
NASA Astrophysics Data System (ADS)
Odavić, Jovan; Mali, Petar; Tekić, Jasmina; Pantić, Milan; Pavkov-Hrvojević, Milica
2017-06-01
Dynamics of driven dissipative Frenkel-Kontorova model is examined by using largest Lyapunov exponent computational technique. Obtained results show that besides the usual way where behavior of the system in the presence of external forces is studied by analyzing its dynamical response function, the largest Lyapunov exponent analysis can represent a very convenient tool to examine system dynamics. In the dc driven systems, the critical depinning force for particular structure could be estimated by computing the largest Lyapunov exponent. In the dc+ac driven systems, if the substrate potential is the standard sinusoidal one, calculation of the largest Lyapunov exponent offers a more sensitive way to detect the presence of Shapiro steps. When the amplitude of the ac force is varied the behavior of the largest Lyapunov exponent in the pinned regime completely reflects the behavior of Shapiro steps and the critical depinning force, in particular, it represents the mirror image of the amplitude dependence of critical depinning force. This points out an advantage of this technique since by calculating the largest Lyapunov exponent in the pinned regime we can get an insight into the dynamics of the system when driving forces are applied. Additionally, the system is shown to be not chaotic even in the case of incommensurate structures and large amplitudes of external force, which is a consequence of overdampness of the model and the Middleton's no passing rule.
Forces and Motion: Dynamics of the Tethered Satellite
NASA Technical Reports Server (NTRS)
1994-01-01
In this 'Lift off to Learning' series, Loren Shriver, commander of STS 46, and the other members of the mission (Claude Nicollier, Marsha Ivins, Andrew Allen, Jeffrey Hoffman, Franklin Chiang-Diaz, and Franco Maerba) use computer graphics, and physical experiments to explain how the tethered satellite to be deployed during their mission will be raised, how it works, the influence of the Shuttle on the satellite and the satellite's influence on the Shuttle's orbit, the gravitational effects, and other effects concerning the Theoretical Physics used to plan this mission (gravity gradient force, center of mass, angular momentum, centrifugal force, and coriolis effect). This video ends with a discussion of the technology transfer and utilization of this tethered satellite concept and design.
On reconstruction of dynamic permeability and tortuosity from data at distinct frequencies
NASA Astrophysics Data System (ADS)
Ou, Miao-Jung Yvonne
2014-09-01
This article focuses on the mathematical problem of reconstructing the dynamic permeability K(\\omega ) and dynamic tortuosity of poroelastic composites from permeability data at different frequencies, utilizing the analytic structure of the Stieltjes function representation of K(\\omega ) derived by Avellaneda and Tortquato (1991 Phys. Fluids A 3 2529), which is valid for all pore space geometry. The integral representation formula (IRF) for dynamic tortuosity is derived and its analytic structure exploited for reconstructing the function from a finite data set. All information of pore-space microstructure is contained in the measure of the IRF. The theory of multipoint Padé approximates for Stieltjes functions guarantees the existence of relaxation kernels that can approximate the dynamic permeability function and the dynamic tortuosity function with high accuracy. In this paper, a numerical algorithm is proposed for computing the relaxation time and the corresponding strength for each element in the relaxation kernels. In the frequency domain, this approximation can be regarded as approximating the Stieltjes function by rational functions with simple poles and positive residues. The main difference between this approach and the curve fitting approach is that the relaxation times and the strengths are computed from the partial fraction decomposition of the multipoint Padé approximates, which is the main subject of the proposed approximation scheme. With the idea from dehomogenization, we also established the exact relations between the moments of the positive measures in the IRFs of permeability and tortuosity with two important parameters in the theory of poroelasticity: the infinite-frequency tortuosity {{\\alpha }_{\\infty }} for the general case and the weighted volume-to-surface ratio Λ for the JKD model, which is regarded as a special case of the general model. From these relations, we suggest a new way for evaluating these two microstructure
Quasi-static and dynamic magnetic tension forces in arched, line-tied magnetic flux ropes
NASA Astrophysics Data System (ADS)
Myers, C. E.; Yamada, M.; Ji, H.; Yoo, J.; Jara-Almonte, J.; Fox, W.
2017-01-01
Solar eruptions are often driven by magnetohydrodynamic instabilities such as the torus and kink instabilities that act on line-tied magnetic flux ropes. Recent laboratory experiments designed to study these eruptive instabilities have demonstrated the key role of both dynamic (Myers et al 2015 Nature 528 526) and quasi-static (Myers et al 2016 Phys. Plasmas 23 112102) magnetic tension forces in contributing to the equilibrium and stability of line-tied magnetic flux ropes. In this paper, we synthesize these laboratory results and explore the relationship between the dynamic and quasi-static tension forces. While the quasi-static tension force is found to contribute to the flux rope equilibrium in a number of regimes, the dynamic tension force is substantial mostly in the so-called failed torus regime where magnetic self-organization events prevent the flux rope from erupting.
Quasi-static and dynamic magnetic tension forces in arched, line-tied magnetic flux ropes
Myers, C. E.; Yamada, M.; Ji, H.; Yoo, J.; Jara-Almonte, J.; Fox, W.
2016-11-22
Solar eruptions are often driven by magnetohydrodynamic instabilities such as the torus and kink instabilities that act on line-tied magnetic flux ropes. We designed our recent laboratory experiments to study these eruptive instabilities which have demonstrated the key role of both dynamic (Myers et al 2015 Nature 528 526) and quasi-static (Myers et al 2016 Phys. Plasmas 23 112102) magnetic tension forces in contributing to the equilibrium and stability of line-tied magnetic flux ropes. In our paper, we synthesize these laboratory results and explore the relationship between the dynamic and quasi-static tension forces. And while the quasi-static tension force is found to contribute to the flux rope equilibrium in a number of regimes, the dynamic tension force is substantial mostly in the so-called failed torus regime where magnetic self-organization events prevent the flux rope from erupting.
Quasi-static and dynamic magnetic tension forces in arched, line-tied magnetic flux ropes
Myers, C. E.; Yamada, M.; Ji, H.; ...
2016-11-22
Solar eruptions are often driven by magnetohydrodynamic instabilities such as the torus and kink instabilities that act on line-tied magnetic flux ropes. We designed our recent laboratory experiments to study these eruptive instabilities which have demonstrated the key role of both dynamic (Myers et al 2015 Nature 528 526) and quasi-static (Myers et al 2016 Phys. Plasmas 23 112102) magnetic tension forces in contributing to the equilibrium and stability of line-tied magnetic flux ropes. In our paper, we synthesize these laboratory results and explore the relationship between the dynamic and quasi-static tension forces. And while the quasi-static tension force ismore » found to contribute to the flux rope equilibrium in a number of regimes, the dynamic tension force is substantial mostly in the so-called failed torus regime where magnetic self-organization events prevent the flux rope from erupting.« less
Attitude dynamics and control of spacecraft using geomagnetic Lorentz force
NASA Astrophysics Data System (ADS)
Abdel-Aziz, Yehia A.; Shoaib, Muhammad
2015-01-01
Attitude stabilization of a charged rigid spacecraft in Low Earth Orbit using torques due to Lorentz force in pitch and roll directions is considered. A spacecraft that generates an electrostatic charge on its surface in the Earth's magnetic field will be subject to perturbations from the Lorentz force. The Lorentz force acting on an electrostatically charged spacecraft may provide a useful thrust for controlling a spacecraft's orientation. We assume that the spacecraft is moving in the Earth's magnetic field in an elliptical orbit under the effects of gravitational, geomagnetic and Lorentz torques. The magnetic field of the Earth is modeled as a non-tilted dipole. A model incorporating all Lorentz torques as a function of orbital elements has been developed on the basis of electric and magnetic fields. The stability of the spacecraft orientation is investigated both analytically and numerically. The existence and stability of equilibrium positions is investigated for different values of the charge to mass ratio (α*). Stable orbits are identified for various values of α*. The main parameters for stabilization of the spacecraft are α* and the difference between the components of the moment of inertia for the spacecraft.
There is no trade-off between speed and force in a dynamic lever system.
McHenry, Matthew J
2011-06-23
Lever systems within a skeleton transmit force with a capacity determined by the mechanical advantage, A. A is the distance from input force to a joint, divided by the distance from the joint to the output force. A lever with a relatively high A in static equilibrium has a great capacity to generate force but moves a load over a small distance. Therefore, the geometry of a skeletal lever presents a trade-off between force and speed under quasi-static conditions. The present study considers skeletal dynamics that do not assume static equilibrium by modelling kicking by a locust leg, which is powered by stored elastic energy. This model predicts that the output force of this lever is proportional to A, but its maximum speed is independent of A. Therefore, no trade-off between force and velocity exists in a lever system with spring-mass dynamics. This demonstrates that the motion of a skeleton depends on the major forces that govern its dynamics and cannot be inferred from skeletal geometry alone.
NASA Astrophysics Data System (ADS)
Lapointe Elmrabti, L.; Fortier, D.; Shur, Y.; Kanevskiy, M. Z.; Talbot, J.
2013-12-01
The Itkillik river area in Alaska (69°34‧ N, 150°52‧W), is part of the loosely defined region of Beringia, which was largely unglaciated during the last ice age. Beringia is known to have acted as a refugium for boreal trees and shrubs during the Pleistocene, but questions remain about the environmental history of North-Eastern Beringia, especially the extent and dynamics of the now extinct tundra-steppe biome. The 33-m-high Itkillik river exposure formed over the late Pleistocene / early Holocene (48,000 to 5,000 14C yr BP) and the exposed eolian sediments are largely undisturbed, offering a unique opportunity to examine a long term vegetation sequence in high latitude environment and link the vegetation reconstructions with the sedimentology and cryostratigraphy of the region. Because of the very low concentration of pollen in the sediments, we utilized an extraction method based on heavy-liquid (Sodium Polytungstate (SPT)) separation. Our results show a tundra-steppe vegetation type, characterized by the abundance of cyperacea and graminea taxa. Overall the pollen record of the Itkillik exposure will provide an important point of comparison to other sites localised in the circumpolar circle, especially in Siberia, as yedoma remains one of the most noticeable structures of the cold and dry periglacial environment of the Arctic and subarctic east Siberia. Implications of our findings for local climate reconstructions using pollen-climate transfer functions are discussed.
NASA Astrophysics Data System (ADS)
Korotkii, Alexander; Kovtunov, Dmitry; Ismail-Zadeh, Alik; Tsepelev, Igor; Melnik, Oleg
2016-06-01
We study a model of lava flow to determine its thermal and dynamic characteristics from thermal measurements of the lava at its surface. Mathematically this problem is reduced to solving an inverse boundary problem. Namely, using known conditions at one part of the model boundary we determine the missing condition at the remaining part of the boundary. We develop a numerical approach to the mathematical problem in the case of steady-state flow. Assuming that the temperature and the heat flow are prescribed at the upper surface of the model domain, we determine the flow characteristics in the entire model domain using a variational (adjoint) method. We have performed computations of model examples and showed that in the case of smooth input data the lava temperature and the flow velocity can be reconstructed with a high accuracy. As expected, a noise imposed on the smooth input data results in a less accurate solution, but still acceptable below some noise level. Also we analyse the influence of optimization methods on the solution convergence rate. The proposed method for reconstruction of physical parameters of lava flows can also be applied to other problems in geophysical fluid flows.
Accurate formula for conversion of tunneling current in dynamic atomic force spectroscopy
NASA Astrophysics Data System (ADS)
Sader, John E.; Sugimoto, Yoshiaki
2010-07-01
Recent developments in frequency modulation atomic force microscopy enable simultaneous measurement of frequency shift and time-averaged tunneling current. Determination of the interaction force is facilitated using an analytical formula, valid for arbitrary oscillation amplitudes [Sader and Jarvis, Appl. Phys. Lett. 84, 1801 (2004)]. Here we present the complementary formula for evaluation of the instantaneous tunneling current from the time-averaged tunneling current. This simple and accurate formula is valid for any oscillation amplitude and current law. The resulting theoretical framework allows for simultaneous measurement of the instantaneous tunneling current and interaction force in dynamic atomic force microscopy.
Jansen-Osmann, Petra; Richter, Stefanie; Konczak, Jürgen; Kalveram, Karl-Theodor
2002-03-01
When humans perform goal-directed arm movements under the influence of an external damping force, they learn to adapt to these external dynamics. After removal of the external force field, they reveal kinematic aftereffects that are indicative of a neural controller that still compensates the no longer existing force. Such behavior suggests that the adult human nervous system uses a neural representation of inverse arm dynamics to control upper-extremity motion. Central to the notion of an inverse dynamic model (IDM) is that learning generalizes. Consequently, aftereffects should be observable even in untrained workspace regions. Adults have shown such behavior, but the ontogenetic development of this process remains unclear. This study examines the adaptive behavior of children and investigates whether learning a force field in one hemifield of the right arm workspace has an effect on force adaptation in the other hemifield. Thirty children (aged 6-10 years) and ten adults performed 30 degrees elbow flexion movements under two conditions of external damping (negative and null). We found that learning to compensate an external damping force transferred to the opposite hemifield, which indicates that a model of the limb dynamics rather than an association of visited space and experienced force was acquired. Aftereffects were more pronounced in the younger children and readaptation to a null-force condition was prolonged. This finding is consistent with the view that IDMs in children are imprecise neural representations of the actual arm dynamics. It indicates that the acquisition of IDMs is a developmental achievement and that the human motor system is inherently flexible enough to adapt to any novel force within the limits of the organism's biomechanics.
Yu, Zhengyang; Zheng, Shusen; Chen, Huaiqing; Wang, Jianjun; Xiong, Qingwen; Jing, Wanjun; Zeng, Yu
2006-10-01
This research studies the process of dynamic concision and 3D reconstruction from medical body data using VRML and JavaScript language, focuses on how to realize the dynamic concision of 3D medical model built with VRML. The 2D medical digital images firstly are modified and manipulated by 2D image software. Then, based on these images, 3D mould is built with VRML and JavaScript language. After programming in JavaScript to control 3D model, the function of dynamic concision realized by Script node and sensor node in VRML. The 3D reconstruction and concision of body internal organs can be formed in high quality near to those got in traditional methods. By this way, with the function of dynamic concision, VRML browser can offer better windows of man-computer interaction in real time environment than before. 3D reconstruction and dynamic concision with VRML can be used to meet the requirement for the medical observation of 3D reconstruction and has a promising prospect in the fields of medical image.
Calculation of structural dynamic forces and stresses using mode acceleration
NASA Technical Reports Server (NTRS)
Blelloch, Paul
1989-01-01
While the standard mode acceleration formulation in structural dynamics has often been interpreted to suggest that the reason for improved convergence obtainable is that the dynamic correction factor is divided by the modal frequencies-squared, an alternative formulation is presented which clearly indicates that the only difference between mode acceleration and mode displacement data recovery is the addition of a static correction term. Attention is given to the advantages in numerical implementation associated with this alternative, as well as to an illustrative example.
De novo reconstruction of DNA origami structures through atomistic molecular dynamics simulation
Maffeo, Christopher; Yoo, Jejoong; Aksimentiev, Aleksei
2016-01-01
The DNA origami method has brought nanometer-precision fabrication to molecular biology labs, offering myriads of potential applications in the fields of synthetic biology, medicine, molecular computation, etc. Advancing the method further requires controlling self-assembly down to the atomic scale. Here we demonstrate a computational method that allows the equilibrium structure of a large, complex DNA origami object to be determined to atomic resolution. Through direct comparison with the results of cryo-electron microscopy, we demonstrate de novo reconstruction of a 4.7 megadalton pointer structure by means of fully atomistic molecular dynamics simulations. Furthermore, we show that elastic network-guided simulations performed without solvent can yield similar accuracy at a fraction of the computational cost, making this method an attractive approach for prototyping and validation of self-assembled DNA nanostructures. PMID:26980283
Jung, Yihwan; Jung, Moonki; Ryu, Jiseon; Yoon, Sukhoon; Park, Sang-Kyoon; Koo, Seungbum
2016-03-01
Human dynamic models have been used to estimate joint kinetics during various activities. Kinetics estimation is in demand in sports and clinical applications where data on external forces, such as the ground reaction force (GRF), are not available. The purpose of this study was to estimate the GRF during gait by utilizing distance- and velocity-dependent force models between the foot and ground in an inverse-dynamics-based optimization. Ten males were tested as they walked at four different speeds on a force plate-embedded treadmill system. The full-GRF model whose foot-ground reaction elements were dynamically adjusted according to vertical displacement and anterior-posterior speed between the foot and ground was implemented in a full-body skeletal model. The model estimated the vertical and shear forces of the GRF from body kinematics. The shear-GRF model with dynamically adjustable shear reaction elements according to the input vertical force was also implemented in the foot of a full-body skeletal model. Shear forces of the GRF were estimated from body kinematics, vertical GRF, and center of pressure. The estimated full GRF had the lowest root mean square (RMS) errors at the slow walking speed (1.0m/s) with 4.2, 1.3, and 5.7% BW for anterior-posterior, medial-lateral, and vertical forces, respectively. The estimated shear forces were not significantly different between the full-GRF and shear-GRF models, but the RMS errors of the estimated knee joint kinetics were significantly lower for the shear-GRF model. Providing COP and vertical GRF with sensors, such as an insole-type pressure mat, can help estimate shear forces of the GRF and increase accuracy for estimation of joint kinetics.
VEDA: a web-based virtual environment for dynamic atomic force microscopy.
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.
3D Reconstruction of Human Laryngeal Dynamics Based on Endoscopic High-Speed Recordings.
Semmler, Marion; Kniesburges, Stefan; Birk, Veronika; Ziethe, Anke; Patel, Rita; Dollinger, Michael
2016-07-01
Standard laryngoscopic imaging techniques provide only limited two-dimensional insights into the vocal fold vibrations not taking the vertical component into account. However, previous experiments have shown a significant vertical component in the vibration of the vocal folds. We present a 3D reconstruction of the entire superior vocal fold surface from 2D high-speed videoendoscopy via stereo triangulation. In a typical camera-laser set-up the structured laser light pattern is projected on the vocal folds and captured at 4000 fps. The measuring device is suitable for in vivo application since the external dimensions of the miniaturized set-up barely exceed the size of a standard rigid laryngoscope. We provide a conservative estimate on the resulting resolution based on the hardware components and point out the possibilities and limitations of the miniaturized camera-laser set-up. In addition to the 3D vocal fold surface, we extended previous approaches with a G2-continuous model of the vocal fold edge. The clinical applicability was successfully established by the reconstruction of visual data acquired from 2D in vivo high-speed recordings of a female and a male subject. We present extracted dynamic parameters like maximum amplitude and velocity in the vertical direction. The additional vertical component reveals deeper insights into the vibratory dynamics of the vocal folds by means of a non-invasive method. The successful miniaturization allows for in vivo application giving access to the most realistic model available and hence enables a comprehensive understanding of the human phonation process.
Dynamic Force Imaging and Spectroscopy of Individual Molecules
NASA Astrophysics Data System (ADS)
Repp, Jascha
2014-03-01
In atomic force microscopy (AFM) the qPlus sensor facilitates the use of metallic tips, which are typically used in scanning tunneling microscopy (STM), and thereby facilitates combined STM and AFM experiments at cryogenic temperatures. The use of CO-functionalized tips as has been introduced recently by Gross and co-workers enabled unprecedented resolution and thereby fostered the rapid recent development of the field. We made use of the complementary information that STM and AFM can provide in different contexts. When applied to STM-based single-molecule synthesis, the combination of these techniques enables a direct quantification of the interplay of geometry and electronic coupling in metal-organic complexes in real space. Further, we combined STM on semiconductors with Kelvin probe force spectroscopy (KPFS) performed simultaneously in the same setup with the very same tip. This combination of tools allows us to experimentally recover the zero point of the energy scale usually being obscured due to so-called tip-induced band bending when measuring on surfaces of semiconductors. Finally, we used KPFS with sub-molecular resolution to image the polarity of individual bonds.
Defense at Low Force Levels: The Effect of Force to Space Ratios on Conventional Combat Dynamics
1991-08-01
The Atlantic Council of the United States, 1989), pp. 1-17, esp. p. I 11; United States General Accounting Office, NATO-WKM b"t Assment of the...command, or reconnais- sance vehicles we also one-half an AFVE. Field artillery and airc-raft wle accounted separaely in units of tubes and sorties...the threshold conception depicted in Figure I- lA. In effect, if we do not explicitly account for the role of changing defender force employment, then
Integrated dynamic and static tactile sensor: focus on static force sensing
NASA Astrophysics Data System (ADS)
Wettels, Nicholas; Pletner, Baruch
2012-04-01
Object grasping by robotic hands in unstructured environments demands a sensor that is durable, compliant, and responsive to static and dynamic force conditions. In order for a tactile sensor to be useful for grasp control in these, it should have the following properties: tri-axial force sensing (two shear plus normal component), dynamic event sensing across slip frequencies, compliant surface for grip, wide dynamic range (depending on application), insensitivity to environmental conditions, ability to withstand abuse and good sensing behavior (e.g. low hysteresis, high repeatability). These features can be combined in a novel multimodal tactile sensor. This sensor combines commercial-off-the-shelf MEMS technology with two proprietary force sensors: a high bandwidth device based on PZT technology and low bandwidth device based on elastomers and optics. In this study, we focus on the latter transduction mechanism and the proposed architecture of the completed device. In this study, an embedded LED was utilized to produce a constant light source throughout a layer of silicon rubber which covered a plastic mandrel containing a set of sensitive phototransistors. Features about the contacted object such as center of pressure and force vectors can be extracted from the information in the changing patterns of light. The voltage versus force relationship obtained with this molded humanlike finger had a wide dynamic range that coincided with forces relevant for most human grip tasks.
NASA Astrophysics Data System (ADS)
Doyen, Elise; Vannière, Boris; Gauthier, Emilie; Bichet, Vincent; Berger, Jean-François; Arnaud, Fabien
2010-05-01
Small lakes with little catchment areas, and high resolution Holocene sediment infilling, offer the interest to record mainly local perturbation and to study the switch from climatic to anthropogenic forcing. Two cores were extracted from Lake Antre in the Jura Mountains (Eastern France, 798 m a.s.l) and Lake Moras located on a low-elevated plateau from the upper Rhone valley (Eastern France, 304 m a.s.l). Cores taken from the deep zone of the lakes present continuous sedimentary series from the Late-glacial (15 000 cal. BP) for Lake Moras and from the Atlantic chronozone (6000 cal. BP) for Lake Antre. Several archaeological excavations and investigations around Lakes Antre and Moras give evidence of major human occupation during Gallo-roman period, while former settlements are indicating by Pre- and Protohistoric archaeological artifacts. Multi-proxy reconstructions with high temporal resolution were undertaken: vegetation dynamics by pollen analysis, fire history by the quantification of microscopic charcoal and soil erosion by magnetic susceptibility measurements. Before the anthropogenic forcing, during the mid-Holocene environment of both lakes are constituted mainly by a dense mixed oak forest. The first palaeoecological signs of anthropogenic impact on the two sites appear to have been discontinuous and limited. They appear at the early Neolithic (ca 6000 cal .BP) for Lake Moras and during the Bronze Age (4000 to 3000 cal .BP) for Lake Antre. For the both sites, all the proxies indicate an acceleration of human impact around 3000 to 2700 cal. BP i.e. at the transition between the Bronze Age and the beginning of the Iron Age. The dense forest and the Alnus dominated vegetation on borders of lakes are affected by several clearances. The influx of micro-charcoal increases due to the use of the fire for clearing and manage settlements. The development of Poaceae and Anthropogenic Pollen Indicators (API) suggest an expansion of pastures, whereas the farming
Grassland dynamics and its driving forces in western Northeast China
NASA Astrophysics Data System (ADS)
Chang, Liping; Yang, Jiuchun; Zhang, Shuwen; Zhang, Yangzhen
2009-07-01
The study area including Kerqin Pasture and the farming-pastoral ecotone of Songnen Plain, is located in the western Northeast China. It is a natural protective screen for the Northeast Plain, which is the most important one of national food bases, to ensure the food supply security and ecological security. Based on the Landsat5/TM and ETM remote sensed images of 1986, 1996 and 2000, the grassland dynamic characteristics of the above two parts of the study area, including change area, transformation, change velocity, are analyzed respectively by land use/land cover spatial change models. The results show that, the grassland area of Kerqin Pasture decreased by 3,200 km2, while that of the western Songnen Plain decreased by 4,800 km2. It was mainly due to grassland reclamation activities driven by rapid population expansion. According to the results of regional differences got by GIS technique, in Kerqin Pasture, the dynamic degree in Shuangliao county of Jilin province is the largest, up to 2.7%, while the value of Alukerqin Banner is much smaller, and the grassland is well protected. In the western Songnen Plain, the dynamic degree in Baicheng and Taonan of Jilin province is more than 4%, primarily caused by grassland reclamation as well. By contrast, the grassland in Anda city and Qinggang county of Heilongjiang province took a turn for the better with active protection and improvement measures.
The acute effects of dynamic and ballistic stretching on vertical jump height, force, and power.
Jaggers, Jason R; Swank, Ann M; Frost, Karen L; Lee, Chong D
2008-11-01
Stretching before performance is a common practice among athletes in hopes of increasing performance and reducing the risk of injury. However, cumulative results indicate a negative impact of static stretching and proprioceptive neuromuscular facilitation (PNF) on performance; thus, there is a need for evaluating other stretching strategies for effective warm-up. The purpose of this study was to compare the differences between two sets of ballistic stretching and two sets of a dynamic stretching routine on vertical jump performance. Twenty healthy male and female college students between the ages of 22 and 34 (24.8 +/- 3 years) volunteered to participate in this study. All subjects completed three individual testing sessions on three nonconsecutive days. On each day, the subjects completed one of three treatments (no stretch, ballistic stretch, and dynamic stretch). Intraclass reliability was determined using the data obtained from each subject. A paired samples t-test revealed no significant difference in jump height, force, or power when comparing no stretch with ballistic stretch. A significant difference was found on jump power when comparing no stretch with dynamic stretch, but no significant difference was found for jump height or force. Statistics showed a very high reliability when measuring jump height, force, and power using the Kistler Quattro Jump force plate. It seems that neither dynamic stretching nor ballistic stretching will result in an increase in vertical jump height or force. However, dynamic stretching elicited gains in jump power poststretch.
Impact of External Forcing on Glacier Dynamics at Jakobshavn Isbræ during 1840-2012
NASA Astrophysics Data System (ADS)
Muresan, I. S.; Khan, S. A.; Aschwanden, A.; Khroulev, C.; Bjork, A. A.; Box, J. E.
2014-12-01
Greenland's main outlet glaciers have more than doubled their contribution to global sea-level rise over the past decade through acceleration of ice discharge. One of the triggering mechanisms is a reduction in resistance (buttressing) at the marine based glacier front (i.e. through reduced thickness or retreat of the floating tongue of a glacier) caused by enhanced calving or a longer-term thinning due to a mass deficit of the ice sheet. Recent findings indicate the reduced buttressing at the marine terminus is responsible for the recent dynamic changes observed in Greenland, but the controlling processes and triggering mechanisms are still unclear. Furthermore, our current understanding is almost entirely based on observations from a short-term record spanning only from a year to a decade, and is characterized by short-term fluctuations and therefore not representative for longer-term trends of several decade time scales. Here, we study the mechanisms controlling dynamic changes at the terminus of Jakobshavn Isbræ over a period of 172 years. The recent glacier acceleration began in late 1990s but there is evidence for glacier retreat of comparable magnitude in 1930s, when a similarly warm period occurred. To control the acceleration and retreat based on observed front positions during 1840-2012, we use an ocean model modifier that implements forcing at the ocean boundary using melange back pressure offsets. The mean temperature anomaly in west Greenland, the North Atlantic oscillation (NAO) winter index and the Atlantic multidecadal oscillation (AMO) index anomalies for the period 1900-2012 sustain our modelling results. The modelled surface elevation changes near the front are considered and compared with observed surface elevation changes for the period 1880-2012. Furthermore, the modelled mass loss signal between 1997-2012 is validated based on ice mass change observations which we estimate using altimeter surveys from NASA's ATM flights during 1997
WE-G-18C-08: Real Time Tumor Imaging Using a Novel Dynamic Keyhole MRI Reconstruction Technique
Lee, D; Pollock, S; Whelan, B; Keall, P; Greer, P; Kim, T
2014-06-15
Purpose: To test the hypothesis that the novel Dynamic Keyhole MRI reconstruction technique can accelerate image acquisition whilst maintaining high image quality for lung cancer patients. Methods: 18 MRI datasets from 5 lung cancer patients were acquired using a 3T MRI scanner. These datasets were retrospectively reconstructed using (A) The novel Dynamic Keyhole technique, (B) The conventional keyhole technique and (C) the conventional zero filling technique. The dynamic keyhole technique in MRI refers to techniques in which previously acquired k-space data is used to supplement under sampled data obtained in real time. The novel Dynamic Keyhole technique utilizes a previously acquired a library of kspace datasets in conjunction with central k-space datasets acquired in realtime. A simultaneously acquired respiratory signal is utilized to sort, match and combine the two k-space streams with respect to respiratory displacement. Reconstruction performance was quantified by (1) comparing the keyhole size (which corresponds to imaging speed) required to achieve the same image quality, and (2) maintaining a constant keyhole size across the three reconstruction methods to compare the resulting image quality to the ground truth image. Results: (1) The dynamic keyhole method required a mean keyhole size which was 48% smaller than the conventional keyhole technique and 60% smaller than the zero filling technique to achieve the same image quality. This directly corresponds to faster imaging. (2) When a constant keyhole size was utilized, the Dynamic Keyhole technique resulted in the smallest difference of the tumor region compared to the ground truth. Conclusion: The dynamic keyhole is a simple and adaptable technique for clinical applications requiring real-time imaging and tumor monitoring such as MRI guided radiotherapy. Based on the results from this study, the dynamic keyhole method could increase the imaging frequency by a factor of five compared with full k
Lazar, Petr; Zhang, Shuai; Safářová, Klára; Li, Qiang; Froning, Jens Peter; Granatier, Jaroslav; Hobza, Pavel; Zbořil, Radek; Besenbacher, Flemming; Dong, Mingdong; Otyepka, Michal
2013-02-26
The two-dimensional material graphene has numerous potential applications in nano(opto)electronics, which inevitably involve metal graphene interfaces.Theoretical approaches have been employed to examine metal graphene interfaces, but experimental evidence is currently lacking. Here, we combine atomic force microscopy (AFM) based dynamic force measurements and density functional theory calculations to quantify the interaction between metal-coated AFM tips and graphene under ambient conditions. The results show that copper has the strongest affinity to graphene among the studied metals (Cu, Ag, Au, Pt, Si), which has important implications for the construction of a new generation of electronic devices. Observed differences in the nature of the metal-graphene bonding are well reproduced by the calculations, which included nonlocal Hartree-Fock exchange and van der Waals effects.
Recording the dynamic endocytosis of single gold nanoparticles by AFM-based force tracing
NASA Astrophysics Data System (ADS)
Ding, Bohua; Tian, Yongmei; Pan, Yangang; Shan, Yuping; Cai, Mingjun; Xu, Haijiao; Sun, Yingchun; Wang, Hongda
2015-04-01
We utilized force tracing to directly record the endocytosis of single gold nanoparticles (Au NPs) with different sizes, revealing the size-dependent endocytosis dynamics and the crucial role of membrane cholesterol. The force, duration and velocity of Au NP invagination are accurately determined at the single-particle and microsecond level unprecedentedly.We utilized force tracing to directly record the endocytosis of single gold nanoparticles (Au NPs) with different sizes, revealing the size-dependent endocytosis dynamics and the crucial role of membrane cholesterol. The force, duration and velocity of Au NP invagination are accurately determined at the single-particle and microsecond level unprecedentedly. Electronic supplementary information (ESI) available: Details of the experimental procedures and the results of the control experiments. See DOI: 10.1039/c5nr01020a
UMER: An analog computer for dynamics of swarms interacting via long-range forces
NASA Astrophysics Data System (ADS)
Kishek, R. A.; Bai, G.; Bernal, S.; Feldman, D.; Godlove, T. F.; Haber, I.; O'Shea, P. G.; Quinn, B.; Papadopoulos, C.; Reiser, M.; Stratakis, D.; Tian, K.; Tobin, C. J.; Walter, M.
2006-06-01
Some of the most challenging and interesting problems in nature involve large numbers of objects or particles mutually interacting through long-range forces. Examples range from galaxies and plasmas to flocks of birds and traffic flow on a highway. Even in cases where the form of the interacting force is precisely known, such as the 1/ r2-dependent Coulomb and gravitational forces, such problems present a formidable theoretical and modeling challenge for large numbers of interacting bodies. This paper reports on a newly constructed, scaled particle accelerator that will serve as an experimental testbed for the dynamics of swarms interacting through long-range forces. Primarily designed for intense beam dynamics studies for advanced accelerators, the University of Maryland Electron Ring (UMER) design is described in detail and an update on commissioning is provided. An example application to a system other than a charged particle beam is discussed.
Bohmian dynamics on subspaces using linearized quantum force.
Rassolov, Vitaly A; Garashchuk, Sophya
2004-04-15
In the de Broglie-Bohm formulation of quantum mechanics the time-dependent Schrodinger equation is solved in terms of quantum trajectories evolving under the influence of quantum and classical potentials. For a practical implementation that scales favorably with system size and is accurate for semiclassical systems, we use approximate quantum potentials. Recently, we have shown that optimization of the nonclassical component of the momentum operator in terms of fitting functions leads to the energy-conserving approximate quantum potential. In particular, linear fitting functions give the exact time evolution of a Gaussian wave packet in a locally quadratic potential and can describe the dominant quantum-mechanical effects in the semiclassical scattering problems of nuclear dynamics. In this paper we formulate the Bohmian dynamics on subspaces and define the energy-conserving approximate quantum potential in terms of optimized nonclassical momentum, extended to include the domain boundary functions. This generalization allows a better description of the non-Gaussian wave packets and general potentials in terms of simple fitting functions. The optimization is performed independently for each domain and each dimension. For linear fitting functions optimal parameters are expressed in terms of the first and second moments of the trajectory distribution. Examples are given for one-dimensional anharmonic systems and for the collinear hydrogen exchange reaction.
Chen, Wei; Shi, Chuanyin; MacKerell, Alexander D.; Shen, Jana
2015-01-01
Physics-based force fields are the backbone of molecular dynamics simulations. In recent years, significant progress has been made in the assessment and improvement of commonly-used force fields for describing conformational dynamics of folded proteins. However, the accuracy for the unfolded states remains unclear. The latter is however important for detailed studies of protein folding pathways, conformational transitions involving unfolded states and dynamics of intrinsically disordered proteins. In this work we compare the three commonly-used force fields, AMBER ff99SB-ILDN, CHARMM22/CMAP and CHARMM36, for modeling the natively unfolded fragment peptides, NTL9(1-22) and NTL9(6-17), using explicit-solvent replica-exchange molecular dynamics simulations. All three simulations show that NTL9(6-17) is completely unstructured, while NTL9(1-22) transiently samples various β-hairpin states, reminiscent of the first β-hairpin in the structure of the intact NT9 protein. The radius of gyration of the two peptides is force field independent but likely underestimated due to the current deficiency of additive force fields. Compared to the CHARMM force fields, ff99SB-ILDN gives slightly higher β-sheet propensity and more native-like residual structures for NTL9(1-22), which may be attributed to its known β preference. Surprisingly, only two sequence-local pairs of charged residues make appreciable ionic contacts in the simulations of NTL9(1-22), which are sampled slightly more by the CHARMM force fields. Taken together, these data suggest that the current CHARMM and AMBER force fields are globally in agreement in modeling the unfolded states corresponding to β-sheet in the folded structure, while differing in details such as the native-likeness of the residual structures and interactions. PMID:26020564
NASA Astrophysics Data System (ADS)
Hong, Inki; Cho, Sanghee; Michel, Christian J.; Casey, Michael E.; Schaefferkoetter, Joshua D.
2014-09-01
A new data handling method is presented for improving the image noise distribution and reducing bias when reconstructing very short frames from low count dynamic PET acquisition. The new method termed ‘Complementary Frame Reconstruction’ (CFR) involves the indirect formation of a count-limited emission image in a short frame through subtraction of two frames with longer acquisition time, where the short time frame data is excluded from the second long frame data before the reconstruction. This approach can be regarded as an alternative to the AML algorithm recently proposed by Nuyts et al, as a method to reduce the bias for the maximum likelihood expectation maximization (MLEM) reconstruction of count limited data. CFR uses long scan emission data to stabilize the reconstruction and avoids modification of algorithms such as MLEM. The subtraction between two long frame images, naturally allows negative voxel values and significantly reduces bias introduced in the final image. Simulations based on phantom and clinical data were used to evaluate the accuracy of the reconstructed images to represent the true activity distribution. Applicability to determine the arterial input function in human and small animal studies is also explored. In situations with limited count rate, e.g. pediatric applications, gated abdominal, cardiac studies, etc., or when using limited doses of short-lived isotopes such as 15O-water, the proposed method will likely be preferred over independent frame reconstruction to address bias and noise issues.
Chen, Liyong; Schabel, Matthias C.; DiBella, Edward V.R.
2010-01-01
A number of methods using temporal and spatial constraints have been proposed for reconstruction of undersampled dynamic magnetic resonance imaging (MRI) data. The complex data can be constrained or regularized in a number of different ways, for example, the time derivative of the magnitude and phase image voxels can be constrained separately or jointly. Intuitively, the performance of different regularizations will depend on both the data and the chosen temporal constraints. Here, a complex temporal total variation (TV) constraint was compared to the use of separate real and imaginary constraints, and to a magnitude constraint alone. Projection onto Convex Sets (POCS) with a gradient descent method was used to implement the diverse temporal constraints in reconstructions of DCE MRI data. For breast DCE data, serial POCS with separate real and imaginary TV constraints was found to give relatively poor results while serial/parallel POCS with a complex temporal TV constraint and serial POCS with a magnitude-only temporal TV constraint performed well with an acceleration factor as large as R=6. In the tumor area, the best method was found to be parallel POCS with complex temporal TV constraint. This method resulted in estimates for the pharmacokinetic parameters that were linearly correlated to those estimated from the fully-sampled data, with Ktrans,R=6=0.97 Ktrans,R=1+0.00 with correlation coefficient r=0.98, kep,R=6=0.95 kep,R=1+0.00 (r=0.85). These results suggest that it is possible to acquire highly undersampled breast DCE-MRI data with improved spatial and/or temporal resolution with minimal loss of image quality. PMID:20392585
GravitoMagnetic force in modified Newtonian dynamics
Exirifard, Qasem
2013-08-01
We introduce the Gauge Vector-Tensor (GVT) theory by extending the AQUAL's approach to the GravitoElectroMagnetism (GEM) approximation of gravity. GVT is a generally covariant theory of gravity composed of a pseudo Riemannian metric and two U(1) gauge connections that reproduces MOND in the limit of very weak gravitational fields while remains consistent with the Einstein-Hilbert gravity in the limit of strong and Newtonian gravitational fields. GVT also provides a simple framework to study the GEM approximation to gravity. We illustrate that the gravitomagnetic force at the edge of a galaxy can be in accord with either GVT or ΛCDM but not both. We also study the physics of the GVT theory around the gravitational saddle point of the Sun and Jupiter system. We notice that the conclusive refusal of the GVT theory demands measuring either both of the gravitoelectric and gravitomagnetic fields inside the Sun-Jupiter MOND window, or the gravitoelectric field inside two different solar GVT MOND windows. The GVT theory, however, will be favored by observing an anomaly in the gravitoelectric field inside a single MOND window.
Richoz, Anne-Raphaëlle; Jack, Rachael E; Garrod, Oliver G B; Schyns, Philippe G; Caldara, Roberto
2015-04-01
The human face transmits a wealth of signals that readily provide crucial information for social interactions, such as facial identity and emotional expression. Yet, a fundamental question remains unresolved: does the face information for identity and emotional expression categorization tap into common or distinct representational systems? To address this question we tested PS, a pure case of acquired prosopagnosia with bilateral occipitotemporal lesions anatomically sparing the regions that are assumed to contribute to facial expression (de)coding (i.e., the amygdala, the insula and the posterior superior temporal sulcus--pSTS). We previously demonstrated that PS does not use information from the eye region to identify faces, but relies on the suboptimal mouth region. PS's abnormal information use for identity, coupled with her neural dissociation, provides a unique opportunity to probe the existence of a dichotomy in the face representational system. To reconstruct the mental models of the six basic facial expressions of emotion in PS and age-matched healthy observers, we used a novel reverse correlation technique tracking information use on dynamic faces. PS was comparable to controls, using all facial features to (de)code facial expressions with the exception of fear. PS's normal (de)coding of dynamic facial expressions suggests that the face system relies either on distinct representational systems for identity and expression, or dissociable cortical pathways to access them. Interestingly, PS showed a selective impairment for categorizing many static facial expressions, which could be accounted for by her lesion in the right inferior occipital gyrus. PS's advantage for dynamic facial expressions might instead relate to a functionally distinct and sufficient cortical pathway directly connecting the early visual cortex to the spared pSTS. Altogether, our data provide critical insights on the healthy and impaired face systems, question evidence of deficits
Haptic perception of force magnitude and its relation to postural arm dynamics in 3D
van Beek, Femke E.; Bergmann Tiest, Wouter M.; Mugge, Winfred; Kappers, Astrid M. L.
2015-01-01
In a previous study, we found the perception of force magnitude to be anisotropic in the horizontal plane. In the current study, we investigated this anisotropy in three dimensional space. In addition, we tested our previous hypothesis that the perceptual anisotropy was directly related to anisotropies in arm dynamics. In experiment 1, static force magnitude perception was studied using a free magnitude estimation paradigm. This experiment revealed a significant and consistent anisotropy in force magnitude perception, with forces exerted perpendicular to the line between hand and shoulder being perceived as 50% larger than forces exerted along this line. In experiment 2, postural arm dynamics were measured using stochastic position perturbations exerted by a haptic device and quantified through system identification. By fitting a mass-damper-spring model to the data, the stiffness, damping and inertia parameters could be characterized in all the directions in which perception was also measured. These results show that none of the arm dynamics parameters were oriented either exactly perpendicular or parallel to the perceptual anisotropy. This means that endpoint stiffness, damping or inertia alone cannot explain the consistent anisotropy in force magnitude perception. PMID:26643041
Haptic perception of force magnitude and its relation to postural arm dynamics in 3D.
van Beek, Femke E; Bergmann Tiest, Wouter M; Mugge, Winfred; Kappers, Astrid M L
2015-12-08
In a previous study, we found the perception of force magnitude to be anisotropic in the horizontal plane. In the current study, we investigated this anisotropy in three dimensional space. In addition, we tested our previous hypothesis that the perceptual anisotropy was directly related to anisotropies in arm dynamics. In experiment 1, static force magnitude perception was studied using a free magnitude estimation paradigm. This experiment revealed a significant and consistent anisotropy in force magnitude perception, with forces exerted perpendicular to the line between hand and shoulder being perceived as 50% larger than forces exerted along this line. In experiment 2, postural arm dynamics were measured using stochastic position perturbations exerted by a haptic device and quantified through system identification. By fitting a mass-damper-spring model to the data, the stiffness, damping and inertia parameters could be characterized in all the directions in which perception was also measured. These results show that none of the arm dynamics parameters were oriented either exactly perpendicular or parallel to the perceptual anisotropy. This means that endpoint stiffness, damping or inertia alone cannot explain the consistent anisotropy in force magnitude perception.
Numerical, analytical, experimental study of fluid dynamic forces in seals
NASA Technical Reports Server (NTRS)
Shapiro, William; Artiles, Antonio; Aggarwal, Bharat; Walowit, Jed; Athavale, Mahesh M.; Preskwas, Andrzej J.
1992-01-01
NASA/Lewis Research Center is sponsoring a program for providing computer codes for analyzing and designing turbomachinery seals for future aerospace and engine systems. The program is made up of three principal components: (1) the development of advanced three dimensional (3-D) computational fluid dynamics codes, (2) the production of simpler two dimensional (2-D) industrial codes, and (3) the development of a knowledge based system (KBS) that contains an expert system to assist in seal selection and design. The first task has been to concentrate on cylindrical geometries with straight, tapered, and stepped bores. Improvements have been made by adoption of a colocated grid formulation, incorporation of higher order, time accurate schemes for transient analysis and high order discretization schemes for spatial derivatives. This report describes the mathematical formulations and presents a variety of 2-D results, including labyrinth and brush seal flows. Extensions of 3-D are presently in progress.
Elastic and damping forces generated by confined arrays of dynamic microtubules.
Howard, J
2006-02-28
In addition to serving as structural elements and as tracks for motor proteins, microtubules use chemical energy derived from the hydrolysis of GTP to generate forces when growing and shrinking. These forces are used to push or pull on organelles such as chromosomes and the mitotic spindle. If an array of microtubules grows out from a nucleation site and is confined by the periphery of the cell, pushing and pulling forces can give rise to interesting collective phenomena. In this paper, I show that pushing forces center the array provided that the microtubules are dynamic in the sense that they switch from pushing to shrinking after reaching the periphery. Microtubule dynamics of free ends is neither necessary nor sufficient for centering. Buckling can augment the centering force. For small displacements and velocities, the array can be modeled very simply as a damped spring. The dynamic stiffness of the array is orders of magnitude smaller than its static stiffness, and the relaxation time is on the order of the time that it takes for a microtubule to grow from the center to the periphery. Replacement of a dynamic polymer array with an equivalent mechanical circuit provides a bridge between molecular and cellular mechanics.
Han, Sanghwa
2008-12-12
Estimation of structural perturbation induced by S-nitrosation is important to understand the mode of cellular signal transduction mediated by nitric oxide. Crystal structures of S-nitrosated proteins have been solved only for a few cases, however, so that molecular dynamics simulation may provide an alternative tool for probing structural perturbation. In this study AMBER-99 force field parameters for S-nitrosocysteine were developed and applied to molecular dynamics simulations of S-nitrosated thioredoxin. Geometry optimization at the level of HF/6-31G * was followed by a restrained electrostatic potential charge-fitting to obtain the atomic charges of S-nitrosocysteine. Force constants for bonds and angles were obtained from generalized AMBER force field. Torsional force constants for CC-SN and CS-NO were determined by fitting the torsional profiles obtained from geometry optimization with those from molecular mechanical energy minimization. Finally molecular dynamics simulations were performed with theses parameters on oxidized and reduced thioredoxin with and without S-nitrosocysteine. In all cases the root-mean-square deviations of alpha-carbons yielded well-behaved trajectories. The CC-SH dihedral angle which fluctuated severely during the simulation became quiet upon S-nitrosation. In conclusion the force field parameters developed in this study for S-nitrosocysteine appear to be suitable for molecular dynamics simulations of S-nitrosated proteins.
Fujioka, Shinsuke; Shiraga, Hiroyuki; Azechi, Hiroshi; Nishimura, Hiroaki; Izawa, Yasukazu; Nozaki, Shinya; Chen, Yen-wei
2004-10-01
Temporal resolved x-ray penumbral imaging has been developed using an image reconstruction procedure of the heuristic method and a wide dynamic range x-ray streak camera (XSC). Reconstruction procedure of the penumbral imaging is inherently intolerant to noise, a reconstructed image is strongly distorted by artifacts caused by noise in a penumbral image. Statistical fluctuation in the number of detected photon is the dominant source of noise in an x-ray image, however acceptable brightness of an image is limited by dynamic range of an XSC. The wide dynamic range XSC was used to obtain penumbral images bright enough to be reconstructed. Additionally, the heuristic method was introduced in the penumbral image reconstruction procedure. Distortion of reconstructed images is sufficiently suppressed by these improvements. Density profiles of laser driven brominated plastic and tin plasma were measured with this technique.
Dynamic forces on agglomerated particles caused by high-intensity ultrasound.
Knoop, Claas; Fritsching, Udo
2014-03-01
In this paper the acoustic forces on particles and agglomerates caused by high-intensity ultrasound in gaseous atmosphere are derived by means of computational fluid dynamics (CFD). Sound induced forces cause an oscillating stress scenario where the primary particles of an agglomerate are alternatingly pressed together and torn apart with the frequency of the applied wave. A comparison of the calculated acoustic forces with respect to the inter particle adhesion forces from Van-der-Waals and liquid bridge interactions reveals that the separation forces may reach the same order of magnitude for 80 μm sized SiO2-particles. Hence, with finite probability acoustically agitated gases may de-agglomerate/disperse solid agglomerate structures. This effect is confirmed by dispersion experiments in an acoustic particle levitation setup.
High velocity properties of the dynamic frictional force between ductile metals
Hammerberg, James Edward; Hollan, Brad L; Germann, Timothy C; Ravelo, Ramon J
2010-01-01
The high velocity properties of the tangential frictional force between ductile metal interfaces seen in large-scale NonEquilibrium Molecular Dynamics (NEMD) simulations are characterized by interesting scaling behavior. In many cases a power law decrease in the frictional force with increasing velocity is observed at high velocities. We discuss the velocity dependence of the high velocity branch of the tangential force in terms of structural transformation and ultimate transition, at the highest velocities, to confined fluid behavior characterized by a critical strain rate. The particular case of an Al/Al interface is discussed.
Precision Measurement of the Casimir Force for Au Using a Dynamic Afm
NASA Astrophysics Data System (ADS)
Chang, C.-C.; Banishev, A. A.; Castillo-Garza, R.; Klimchitskaya, G. L.; Mostepanenko, V. M.; Mohideen, U.
2012-07-01
The gradient of the Casimir force between carefully cleaned Au surfaces of a sphere and a plate is measured using a dynamic atomic force microscope in the frequency modulation regime in high vacuum. The electrostatic calibration of the setup did not reveal any effect of patches or surface contaminants. The experimental data for the force gradient are found to be consistent with theory using the plasma model approach over the entire measurement range. The Drude model approach is excluded by the data at separations from 235 to 400 nm at a 67% confidence level.
Liu, Ryan Wen; Shi, Lin; Yu, Simon Chun Ho; Xiong, Naixue; Wang, Defeng
2017-03-03
Dynamic magnetic resonance imaging (MRI) has been extensively utilized for enhancing medical living environment visualization, however, in clinical practice it often suffers from long data acquisition times. Dynamic imaging essentially reconstructs the visual image from raw (k,t)-space measurements, commonly referred to as big data. The purpose of this work is to accelerate big medical data acquisition in dynamic MRI by developing a non-convex minimization framework. In particular, to overcome the inherent speed limitation, both non-convex low-rank and sparsity constraints were combined to accelerate the dynamic imaging. However, the non-convex constraints make the dynamic reconstruction problem difficult to directly solve through the commonly-used numerical methods. To guarantee solution efficiency and stability, a numerical algorithm based on Alternating Direction Method of Multipliers (ADMM) is proposed to solve the resulting non-convex optimization problem. ADMM decomposes the original complex optimization problem into several simple sub-problems. Each sub-problem has a closed-form solution or could be efficiently solved using existing numerical methods. It has been proven that the quality of images reconstructed from fewer measurements can be significantly improved using non-convex minimization. Numerous experiments have been conducted on two in vivo cardiac datasets to compare the proposed method with several state-of-the-art imaging methods. Experimental results illustrated that the proposed method could guarantee the superior imaging performance in terms of quantitative and visual image quality assessments.
Liu, Ryan Wen; Shi, Lin; Yu, Simon Chun Ho; Xiong, Naixue; Wang, Defeng
2017-01-01
Dynamic magnetic resonance imaging (MRI) has been extensively utilized for enhancing medical living environment visualization, however, in clinical practice it often suffers from long data acquisition times. Dynamic imaging essentially reconstructs the visual image from raw (k,t)-space measurements, commonly referred to as big data. The purpose of this work is to accelerate big medical data acquisition in dynamic MRI by developing a non-convex minimization framework. In particular, to overcome the inherent speed limitation, both non-convex low-rank and sparsity constraints were combined to accelerate the dynamic imaging. However, the non-convex constraints make the dynamic reconstruction problem difficult to directly solve through the commonly-used numerical methods. To guarantee solution efficiency and stability, a numerical algorithm based on Alternating Direction Method of Multipliers (ADMM) is proposed to solve the resulting non-convex optimization problem. ADMM decomposes the original complex optimization problem into several simple sub-problems. Each sub-problem has a closed-form solution or could be efficiently solved using existing numerical methods. It has been proven that the quality of images reconstructed from fewer measurements can be significantly improved using non-convex minimization. Numerous experiments have been conducted on two in vivo cardiac datasets to compare the proposed method with several state-of-the-art imaging methods. Experimental results illustrated that the proposed method could guarantee the superior imaging performance in terms of quantitative and visual image quality assessments. PMID:28273827
Cross talk between matrix elasticity and mechanical force regulates myoblast traction dynamics
NASA Astrophysics Data System (ADS)
Al-Rekabi, Zeinab; Pelling, Andrew E.
2013-12-01
Growing evidence suggests that critical cellular processes are profoundly influenced by the cross talk between extracellular nanomechanical forces and the material properties of the cellular microenvironment. Although many studies have examined either the effect of nanomechanical forces or the material properties of the microenvironment on biological processes, few have investigated the influence of both. Here, we performed simultaneous atomic force microscopy and traction force microscopy to demonstrate that muscle precursor cells (myoblasts) rapidly generate a significant increase in traction when stimulated with a local 10 nN force. Cells were cultured and nanomechanically stimulated on hydrogel substrates with controllable local elastic moduli varying from ˜16-89 kPa, as confirmed with atomic force microscopy. Importantly, cellular traction dynamics in response to nanomechanical stimulation only occurred on substrates that were similar to the elasticity of working muscle tissue (˜64-89 kPa) as opposed to substrates mimicking resting tissue (˜16-51 kPa). The traction response was also transient, occurring within 30 s, and dissipating by 60 s, during constant nanomechanical stimulation. The observed biophysical dynamics are very much dependent on rho-kinase and myosin-II activity and likely contribute to the physiology of these cells. Our results demonstrate the fundamental ability of cells to integrate nanoscale information in the cellular microenvironment, such as nanomechanical forces and substrate mechanics, during the process of mechanotransduction.
Force Responses and Sarcomere Dynamics of Cardiac Myofibrils Induced by Rapid Changes in [Pi].
Stehle, Robert
2017-01-24
The second phase of the biphasic force decay upon release of phosphate from caged phosphate was previously interpreted as a signature of kinetics of the force-generating step in the cross-bridge cycle. To test this hypothesis without using caged compounds, force responses and individual sarcomere dynamics upon rapid increases or decreases in concentration of inorganic phosphate [Pi] were investigated in calcium-activated cardiac myofibrils. Rapid increases in [Pi] induced a biphasic force decay with an initial slow decline (phase 1) and a subsequent 3-5-fold faster major decay (phase 2). Phase 2 started with the distinct elongation of a single sarcomere, the so-called sarcomere "give". "Give" then propagated from sarcomere to sarcomere along the myofibril. Propagation speed and rate constant of phase 2 (k+Pi(2)) had a similar [Pi]-dependence, indicating that the kinetics of the major force decay (phase 2) upon rapid increase in [Pi] is determined by sarcomere dynamics. In contrast, no "give" was observed during phase 1 after rapid [Pi]-increase (rate constant k+Pi(1)) and during the single-exponential force rise (rate constant k-Pi) after rapid [Pi]-decrease. The values of k+Pi(1) and k-Pi were similar to the rate constant of mechanically induced force redevelopment (kTR) and Ca(2+)-induced force development (kACT) measured at same [Pi]. These results indicate that the major phase 2 of force decay upon a Pi-jump does not reflect kinetics of the force-generating step but results from sarcomere "give". The other phases of Pi-induced force kinetics that occur in the absence of "give" yield the same information as mechanically and Ca(2+)-induced force kinetics (k+Pi(1) ∼ k-Pi ∼ kTR ∼ kACT). Model simulations indicate that Pi-induced force kinetics neither enable the separation of Pi-release from the rate-limiting transition f into force states nor differentiate whether the "force-generating step" occurs before, along, or after the Pi-release.
NASA Astrophysics Data System (ADS)
Klein, Olivier
2013-03-01
In this talk, we will discuss how magnetic-resonance force microscopy, can provide quantitative measurement of the power emitted by a spin-transfer nano-oscillator, consisting of a normally magnetized Py|Cu|Py circular nanopillar, excited both in the autonomous and forced regimes.[2] From the power behavior in the subcritical region of the autonomous dynamics, one obtains a quantitative measurement of the threshold current and of the noise level. Their field dependence directly yields both the spin torque efficiency acting on the thin layer and the nature of the mode which first auto-oscillates: the lowest energy, spatially most uniform spin-wave mode. We will then demonstrate that the observed spin-wave spectrum in the forced regime critically depends on the method of excitation. While the spatially uniform radio-frequency (RF) magnetic field excites only the axially symmetric modes having azimuthal index l = 0 , the RF current flowing through the nano-pillar, creating a circular RF Oersted field, excites only the modes having azimuthal index l = + 1 .[3] It is then demonstrated that in order to phase lock this auto-oscillating mode, the external source must have the same spatial symmetry as the mode profile, i.e., a uniform microwave field must be used rather than a microwave current flowing through the nanopillar. This research was partially supported by the French Grant Spinnova (ANR-11-NANO-0016)
Heymann, B; Grubmüller, H
2001-01-01
Unbinding of a spin-labeled dinitrophenyl (DNP) hapten from the monoclonal antibody AN02 F(ab) fragment has been studied by force probe molecular dynamics (FPMD) simulations. In our nanosecond simulations, unbinding was enforced by pulling the hapten molecule out of the binding pocket. Detailed inspection of the FPMD trajectories revealed a large heterogeneity of enforced unbinding pathways and a correspondingly large flexibility of the binding pocket region, which exhibited induced fit motions. Principal component analyses were used to estimate the resulting entropic contribution of approximately 6 kcal/mol to the AN02/DNP-hapten bond. This large contribution may explain the surprisingly large effect on binding kinetics found for mutation sites that are not directly involved in binding. We propose that such "entropic control" optimizes the binding kinetics of antibodies. Additional FPMD simulations of two point mutants in the light chain, Y33F and I96K, provided further support for a large flexibility of the binding pocket. Unbinding forces were found to be unchanged for these two mutants. Structural analysis of the FPMD simulations suggests that, in contrast to free energies of unbinding, the effect of mutations on unbinding forces is generally nonadditive. PMID:11509346
Reduced Humidity Effects on Probe Nano-Oxidation Investigated Using Dynamic Force Microscope
NASA Astrophysics Data System (ADS)
Kuramochi, Hiromi; Ando, Kazunori; Tokizaki, Takashi; Yokoyama, Hiroshi
2006-03-01
Humidity effects on nano-oxidation are investigated using a dynamic force microscope in the humidity range of 30-60%. Oxide size and detected faradaic current increased with relative humidity and applied voltage. The aspect ratios of fabricated oxides at various humidities are approximately of the same magnitude. Scanning probe microscope nano-oxidation in the dynamic mode is less subject to the relative humidity than that in the contact mode.
Li, Jizhou; Zhou, Yongjin; Zheng, Yong-Ping; Li, Guanglin
2015-08-01
Muscle force output is an essential index in rehabilitation assessment or physical exams, and could provide considerable insights for various applications such as load monitoring and muscle assessment in sports science or rehabilitation therapy. Besides direct measurement of force output using a dynamometer, electromyography has earlier been used in several studies to quantify muscle force as an indirect means. However, its spatial resolution is easily compromised as a summation of the action potentials from neighboring motor units of electrode site. To explore an alternative method to indirectly estimate the muscle force output, and with better muscle specificity, we started with an investigation on the relationship between architecture dynamics and force output of triceps surae. The muscular architecture dynamics is captured in ultrasonography sequences and estimated using a previously reported motion estimation method. Then an indicator named as the dorsoventrally averaged motion profile (DAMP) is employed. The performance of force output is represented by an instantaneous version of the rate of force development (RFD), namely I-RFD. From experimental results on ten normal subjects, there were significant correlations between the I-RFD and DAMP for triceps surae, both normalized between 0 and 1, with the sum of squares error at 0.0516±0.0224, R-square at 0.7929±0.0931 and root mean squared error at 0.0159±0.0033. The statistical significance results were less than 0.01. The present study suggested that muscle architecture dynamics extracted from ultrasonography during contraction is well correlated to the I-RFD and it can be a promising option for indirect estimation of muscle force output.
Velazquez, Hector A; Hamelberg, Donald
2015-02-21
Cis-trans isomerization of peptidyl-prolyl bonds of the protein backbone plays an important role in numerous biological processes. Cis-trans isomerization can be the rate-limiting step due its extremely slow dynamics, compared to the millisecond time scale of many processes, and is catalyzed by a widely studied family of peptidyl-prolyl cis-trans isomerase enzymes. Also, mechanical forces along the peptide chain can speed up the rate of isomerization, resulting in "mechanical catalysis," and have been used to study peptidyl-prolyl cis-trans isomerization and other mechanical properties of proteins. Here, we use constant force molecular dynamics simulations to study the dynamical effects of phosphorylation on serine/threonine-proline protein motifs that are involved in the function of many proteins and have been implicated in many aberrant biological processes. We show that the rate of cis-trans isomerization is slowed down by phosphorylation, in excellent agreement with experiments. We use a well-grounded theory to describe the force dependent rate of isomerization. The calculated rates at zero force are also in excellent agreement with experimentally measured rates, providing additional validation of the models and force field parameters. Our results suggest that the slowdown in the rate upon phosphorylation is mainly due to an increase in the friction along the peptidyl-prolyl bond angle during isomerization. Our results provide a microscopic description of the dynamical effects of post-translational phosphorylation on cis-trans isomerization and insights into the properties of proteins under tension.
Relationship between jaw opening force and hyoid bone dynamics in healthy elderly subjects
Shinozaki, Hiromichi; Tohara, Haruka; Matsubara, Mariko; Inokuchi, Nobuhiro; Yamazaki, Yasuhiro; Nakane, Ayako; Wakasugi, Yoko; Minakuchi, Shunsuke
2017-01-01
Purpose This study aimed to examine the relationship between jaw opening force and hyoid bone dynamics and resting position in elderly individuals based on gender. Subjects and methods Subjects were 36 healthy elderly individuals aged ≥65 years without dysphagia (16 men and 20 women; mean age 75.5 years, range 65–88 years). Videofluorographic images during the swallowing of 10 mL of 40% (w/v) barium sulfate were obtained and the degrees of anterior, superior, and hypotenuse displacements of the hyoid bone and maximum/resting hyoid position were evaluated. Jaw opening force was measured three times using a jaw opening force sthenometer; the mean of these three measurements was used for analysis. Results In men, there was a positive correlation between jaw opening force and resting hyoid position and negative correlations among all the degrees of anterior, superior, and hypotenuse displacements of the hyoid bone. In women, there was no statistically significant correlation between jaw opening force and any of the measurement items. There was no statistically significant correlation between jaw opening force and maximum hyoid position in either men or women. Conclusion Our findings suggest that low jaw opening force leads to low resting hyoid position only in elderly men, and a lower hyoid position in healthy elderly men results in a larger total amount of hyoid displacement during swallowing. Moreover, a maximum hyoid position in healthy individuals of either gender does not differ depending on their jaw opening force.
Nonlinear Dynamics of Cantilever-Sample Interactions in Atomic Force Microscopy
NASA Technical Reports Server (NTRS)
Cantrell, John H.; Cantrell, Sean A.
2010-01-01
The interaction of the cantilever tip of an atomic force microscope (AFM) with the sample surface is obtained by treating the cantilever and sample as independent systems coupled by a nonlinear force acting between the cantilever tip and a volume element of the sample surface. The volume element is subjected to a restoring force from the remainder of the sample that provides dynamical equilibrium for the combined systems. The model accounts for the positions on the cantilever of the cantilever tip, laser probe, and excitation force (if any) via a basis set of set of orthogonal functions that may be generalized to account for arbitrary cantilever shapes. The basis set is extended to include nonlinear cantilever modes. The model leads to a pair of coupled nonlinear differential equations that are solved analytically using a matrix iteration procedure. The effects of oscillatory excitation forces applied either to the cantilever or to the sample surface (or to both) are obtained from the solution set and applied to the to the assessment of phase and amplitude signals generated by various acoustic-atomic force microscope (A-AFM) modalities. The influence of bistable cantilever modes of on AFM signal generation is discussed. The effects on the cantilever-sample surface dynamics of subsurface features embedded in the sample that are perturbed by surface-generated oscillatory excitation forces and carried to the cantilever via wave propagation are accounted by the Bolef-Miller propagating wave model. Expressions pertaining to signal generation and image contrast in A-AFM are obtained and applied to amplitude modulation (intermittent contact) atomic force microscopy and resonant difference-frequency atomic force ultrasonic microscopy (RDF-AFUM). The influence of phase accumulation in A-AFM on image contrast is discussed, as is the effect of hard contact and maximum nonlinearity regimes of A-AFM operation.
Hydrographical and dynamical reconstruction of the Warm Core Cyprus Eddy from gliders data
NASA Astrophysics Data System (ADS)
Bosse, Anthony; Testor, Pierre; Hayes, Dan; Ruiz, Simon; Mauri, Elena; Charantonis, Anastase; d'Ortenzio, Fabrizio; Mortier, Laurent
2016-04-01
In the 80s, the POEM (Physical Oceanography of the Eastern Mediterranean) cruises in the Levantine Basin first revealed the presence of a very pronounced dynamical structure off Cyprus: The Cyprus Warm Core Eddy. Since then, a large amount of data have been collected thanks to the use of autonomous oceanic gliders (+8000 profiles since 2009). Part of those profiles were carried out in the upper layers down to 200 m, and we take benefit of a novel approach named ITCOMP SOM that uses a statistical approach to extend them down to 1000 m (see [1] for more details). This dataset have a particularly good spatio-temporal coverage in 2009 for about a month, thanks to simultaneous deployments of several gliders (up to 6). In this study, we present a set of 3D reconstruction of the dynamical and hydrographical characteristics of the Warm Core Cyprus Eddy between 2009 and 2015. Moreover, chlorophyll-a fluorescence data measured by the gliders give evidence to strong vertical velocities at the edge of the eddy. We discuss possible mechanisms (frontogenesis, symmetric instability) that could generate such signals and provide an assessment of the role of this peculiar circulation feature on the circulation and biogeochemistry of the Levantine basin. Reference: [1] Charantonis, A., P. Testor, L. Mortier, F. D'Ortenzio, S. Thiria (2015): Completion of a sparse GLIDER database using multi-iterative Self-Organizing Maps (ITCOMP SOM), Procedia Computer Science, 51(1):2198-2206. DOI: 10.1016/j.procs.2015.05.496
NASA Technical Reports Server (NTRS)
Gherlone, Marco; Cerracchio, Priscilla; Mattone, Massimiliano; Di Sciuva, Marco; Tessler, Alexander
2011-01-01
A robust and efficient computational method for reconstructing the three-dimensional displacement field of truss, beam, and frame structures, using measured surface-strain data, is presented. Known as shape sensing , this inverse problem has important implications for real-time actuation and control of smart structures, and for monitoring of structural integrity. The present formulation, based on the inverse Finite Element Method (iFEM), uses a least-squares variational principle involving strain measures of Timoshenko theory for stretching, torsion, bending, and transverse shear. Two inverse-frame finite elements are derived using interdependent interpolations whose interior degrees-of-freedom are condensed out at the element level. In addition, relationships between the order of kinematic-element interpolations and the number of required strain gauges are established. As an example problem, a thin-walled, circular cross-section cantilevered beam subjected to harmonic excitations in the presence of structural damping is modeled using iFEM; where, to simulate strain-gauge values and to provide reference displacements, a high-fidelity MSC/NASTRAN shell finite element model is used. Examples of low and high-frequency dynamic motion are analyzed and the solution accuracy examined with respect to various levels of discretization and the number of strain gauges.
Li Ting; Zhang Jun; Zhang Yuzong; Yang Shuhong E-mail: zjun@nao.cas.cn
2011-09-20
On 2010 August 1, a global solar event was launched involving almost the entire Earth-facing side of the Sun. This event mainly consisted of a C3.2 flare, a polar crown filament eruption, and two Earth-directed coronal mass ejections. The observations from the Solar Dynamics Observatory (SDO) and STEREO showed that all the activities were coupled together, suggesting a global character of the magnetic eruption. We reconstruct the three-dimensional geometry of the polar crown filament using observations from three different viewpoints (STEREO A, STEREO B, and SDO) for the first time. The filament undergoes two eruption processes. First, the main body of the filament rises up, while it also moves toward the low-latitude region with a change in inclination by {approx}48{sup 0} and expands only in the altitudinal and latitudinal direction in the field of view of the Atmospheric Imaging Assembly. We investigate the true velocities and accelerations of different locations along the filament and find that the highest location always has the largest acceleration during this eruption process. During the late phase of the first eruption, part of the filament material separates from the eastern leg. This material displays a projectile motion and moves toward the west at a constant velocity of 141.8 km s{sup -1}. This may imply that the polar crown filament consists of at least two groups of magnetic systems.
Reconstruction of stand dynamics over the last 2500 years from spruce remains in a treeline peatland
Arseneault, D.; Payette, S.
1995-06-01
Stem remains of black spruce Picea mariana (Mill. BSP.) buried in a permafrost treeless peatland were used for the reconstruction of the long-term forest dynamics at treeline in northeastern Canada. Because most spruce remains were well preserved, forest development was assessed from stem morphology (growth form) and tree ring patterns. The peatland border was colonized by a spruce forest from at least 500 BC (2500 BP) to 1568 AD. Most spruce individuals showed an erect, monopodial bole with only minor stem damage at the snow-air interface. The forest successfully regenerated after two fire events around 350 BC and 10 AD. The number of damaged stems at the snow-air interface increased after another fire around 700 AD, although faster ring growth occurred between 860 and 1000 AD (Medieval period). The forest shifted to an open krummholz after the last fire in 1568 AD because of reduced postfire regeneration and site opening. Reforestation of the site would necessitate sustained warmer conditions than those presently prevailing there.
EEG source reconstruction reveals frontal-parietal dynamics of spatial conflict processing.
Cohen, Michael X; Ridderinkhof, K Richard
2013-01-01
Cognitive control requires the suppression of distracting information in order to focus on task-relevant information. We applied EEG source reconstruction via time-frequency linear constrained minimum variance beamforming to help elucidate the neural mechanisms involved in spatial conflict processing. Human subjects performed a Simon task, in which conflict was induced by incongruence between spatial location and response hand. We found an early (∼200 ms post-stimulus) conflict modulation in stimulus-contralateral parietal gamma (30-50 Hz), followed by a later alpha-band (8-12 Hz) conflict modulation, suggesting an early detection of spatial conflict and inhibition of spatial location processing. Inter-regional connectivity analyses assessed via cross-frequency coupling of theta (4-8 Hz), alpha, and gamma power revealed conflict-induced shifts in cortical network interactions: Congruent trials (relative to incongruent trials) had stronger coupling between frontal theta and stimulus-contrahemifield parietal alpha/gamma power, whereas incongruent trials had increased theta coupling between medial frontal and lateral frontal regions. These findings shed new light into the large-scale network dynamics of spatial conflict processing, and how those networks are shaped by oscillatory interactions.
Time-resolved reconstruction of the full velocity field around a dynamically-scaled flapping wing
NASA Astrophysics Data System (ADS)
Poelma, C.; Dickson, W. B.; Dickinson, M. H.
2006-08-01
The understanding of the physics of flapping flight has long been limited due to the obvious experimental difficulties in studying the flow field around real insects. In this study the time-dependent three-dimensional velocity field around a flapping wing was measured quantitatively for the first time. This was done using a dynamically-scaled wing moving in mineral oil in a pattern based on the kinematics obtained from real insects. The periodic flow is very reproducible, due to the relatively low Reynolds number and precise control of the wing. This repeatability was used to reconstruct the full evolving flow field around the wing from separate stereoscopic particle image velocimetry measurements for a number of spanwise planes and time steps. Typical results for two cases (an impulsive start and a simplified flapping pattern) are reported. Visualizations of the obtained data confirm the general picture of the leading-edge vortex that has been reported in recent publications, but allow a refinement of the detailed structure: rather than a single strand of vorticity, we find a stable pair of counter-rotating structures. We show that the data can also be used for quantitative studies, such as lift and drag prediction.
Radical Dissection of Greater Palatine Artery and Dynamic Reconstruction of Cleft Palate
Gill, Nauman Ahmad; Chaudry, Ayesha; Ishaq, Irfan; Aslam, Muhammad; Shamim, Romaisa; Kafeel, Mirza Muhammad; Aazam, Muhammad; Sailer, Hermann; Ganatra, Muhammad Ashraf
2017-01-01
Background: Restoration of proper anatomy and physiology is an integral part of cleft palate repair. The senior author has devised a new technique of radical release of greater palatine vessels, which helps in achieving tension-free closure of palatal cleft. In addition, release and transposition of palatal muscles is performed without the use of operative microscope, resulting in improved palatal function. This technique is applicable to all types of clefts of the palate and can be performed on adult patients as well. Materials and Methods: This is a retrospective case series of cleft palate repairs performed over a period of 3 years. Single-stage repair with modified Bardach’s technique for complete cleft palate and von Langenbeck’s technique for incomplete cleft palate with radical release of greater palatine vessels and levator complex retropositioning was performed. The outcome measures were closure of palatal defect and speech production. A follow-up of at least 6 months was completed in each patient. Results: A total of 1568 patients were included in the study. Their age ranged from 9 months to 54 years. The overall fistula rate was 6.1%. Improvement of speech was observed even in adult patients. Conclusions: Radical release of greater palatine artery and levator complex transposition can dramatically improve results of cleft palate repair. This technique helps in dynamic reconstruction of cleft palate and can be effectively applied in all age groups. PMID:28280675
Iida, Takuya; Mihara, Makoto; Narushima, Mitsunaga; Todokoro, Takeshi; Hara, Hisako; Yoshimatu, Hidehiko; Koshima, Isao; Kadono, Takafumi
2013-03-01
Reconstruction of full-thickness abdominal wall defects remains a difficult surgical challenge. Although various reconstructive methods, including artificial mesh, pedicled and free flaps, have been reported, most reported reconstruction of only the fascia layer, leaving the resected rectus abdominis muscle unreconstructed. However, recent studies suggested the importance of dynamic reconstruction with functional muscle in preventing abdominal hernia in the long-term. According to the principle of reconstructive surgery, "replace lost tissue with similar tissue," a functionally and aesthetically ideal reconstruction is to reconstruct all components of the abdominal wall structure, including skin, subcutaneous fat, fascia, and muscle. We present 2 cases with full-thickness abdominal wall defects in the upper abdominal region, which we reconstructed with a free innervated vastus lateralis muscle flap combined with a free anterolateral thigh flap. The motor nerve of the vastus lateralis muscle was sutured with the intercostal nerve, and reinnervation was confirmed by electromyography. This method allows reconstruction of all components of the abdominal wall with a single flap, and dynamic reconstruction is achieved which will reduce the risk of postoperative hernia. We believe this method can be a good option for reconstruction of full-thickness abdominal wall defects with long-term stability.
Dynamical Ordering of Non-Birkhoff Periodic Orbits in a Forced Pendulum
NASA Astrophysics Data System (ADS)
Yamaguchi, Y.; Tanikawa, K.
2001-12-01
Forced pendulums induce reversible non-monotone twist mappings. Non-Birkhoff periodic orbits (NBO) are found in these mappings, and hence in the pendulums. The existence of an NBO is equivalent to the non-integrability of the system. Two types of dynamical ordering for NBOs are obtained.
A Dynamic Model of the Work Force at the Naval Air Weapons Station China Lake
2008-09-01
2. REPORT DATE September 2008 3 . REPORT TYPE AND DATES COVERED Master’s Thesis 4. TITLE AND SUBTITLE A Dynamic Model of the Work Force at... 3 D. LIMITATIONS OF THE STUDY...30 3 . Simulation Runs and Data Analysis.................................................39 V
Spatial and Temporal Dynamics in the Ionic Driving Force for GABAA Receptors
Wright, R.; Raimondo, J. V.; Akerman, C. J.
2011-01-01
It is becoming increasingly apparent that the strength of GABAergic synaptic transmission is dynamic. One parameter that can establish differences in the actions of GABAergic synapses is the ionic driving force for the chloride-permeable GABAA receptor (GABAAR). Here we review some of the sophisticated ways in which this ionic driving force can vary within neuronal circuits. This driving force for GABAARs is subject to tight spatial control, with the distribution of Cl− transporter proteins and channels generating regional variation in the strength of GABAAR signalling across a single neuron. GABAAR dynamics can result from short-term changes in their driving force, which involve the temporary accumulation or depletion of intracellular Cl−. In addition, activity-dependent changes in the expression and function of Cl− regulating proteins can result in long-term shifts in the driving force for GABAARs. The multifaceted regulation of the ionic driving force for GABAARs has wide ranging implications for mature brain function, neural circuit development, and disease. PMID:21766044
Molecular dynamics simulation study of friction force and torque on a rough spherical particle.
Kohale, Swapnil C; Khare, Rajesh
2010-06-21
Recent developments in techniques of micro- and nanofluidics have led to an increased interest in nanoscale hydrodynamics in confined geometries. In our previous study [S. C. Kohale and R. Khare, J. Chem. Phys. 129, 164706 (2008)], we analyzed the friction force experienced by a smooth spherical particle that is translating in a fluid confined between parallel plates. The magnitude of three effects--velocity slip at particle surface, the presence of confining surfaces, and the cooperative hydrodynamic interactions between periodic images of the moving particle--that determine the friction force was quantified in that work using molecular dynamics simulations. In this work, we have studied the motion of a rough spherical particle in a confined geometry. Specifically, the friction force experienced by a translating particle and the torque experienced by a rotating particle are studied using molecular dynamics simulations. Our results demonstrate that the surface roughness of the particle significantly reduces the slip at the particle surface, thus leading to higher values of the friction force and hence a better agreement with the continuum predictions. The particle size dependence of the friction force and the torque values is shown to be consistent with the expectations from the continuum theory. As was observed for the smooth sphere, the cooperative hydrodynamic interactions between the images of the sphere have a significant effect on the value of the friction force experienced by the translating sphere. On the other hand, the torque experienced by a spherical particle that is rotating at the channel center is insensitive to this effect.
A method of improving the dynamic response of 3D force/torque sensors
NASA Astrophysics Data System (ADS)
Osypiuk, Rafał; Piskorowski, Jacek; Kubus, Daniel
2016-02-01
In the paper attention is drawn to adverse dynamic properties of filters implemented in commercial measurement systems, force/torque sensors, which are increasingly used in industrial robotics. To remedy the problem, it has been proposed to employ a time-variant filter with appropriately modulated parameters, owing to which it is possible to suppress the amplitude of the transient response and, at the same time, to increase the pulsation of damped oscillations; this results in the improvement of dynamic properties in terms of reducing the duration of transients. This property plays a key role in force control and in the fundamental problem of the robot establishing contact with rigid environment. The parametric filters have been verified experimentally and compared with filters available for force/torque sensors manufactured by JR3. The obtained results clearly indicate the advantages of the proposed solution, which may be an interesting alternative to the classic methods of filtration.
NASA Technical Reports Server (NTRS)
Jaffe, Richard; Langhoff, Stephen R. (Technical Monitor)
1995-01-01
Ab initio quantum chemistry calculations for model molecules can be used to parameterize force fields for molecular dynamics simulations of polymers. Emphasis in our research group is on using quantum chemistry-based force fields for molecular dynamics simulations of organic polymers in the melt and glassy states, but the methodology is applicable to simulations of small molecules, multicomponent systems and solutions. Special attention is paid to deriving reliable descriptions of the non-bonded and electrostatic interactions. Several procedures have been developed for deriving and calibrating these parameters. Our force fields for aromatic polyimide simulations will be described. In this application, the intermolecular interactions are the critical factor in determining many properties of the polymer (including its color).
A Simple Stratosphere-Mesosphere Extension of the Held-Suarez Forcing for Dynamical Cores
NASA Technical Reports Server (NTRS)
Lin, S.-J.
1999-01-01
A simple extension of the Held-Suarez (H-S) forcing that is capable of producing a realistic general circulation not only in the troposphere but also the stratosphere and the mesosphere will be presented. Similar to the original H-S forcing, an annual-mean like radiative equilibrium temperature is used. This extension is an ideal test bed for gravity wave drag parameterizations. It is also an inexpensive test bed for studying the mechanism of the Quasi-Biannual oscillations (QBO) and the "age spectrum" of the dynamical core formulation. The "mean climate" as well as the natural variability of the middle atmosphere as simulated by the NASA Data Assimilation Office finite-volume dynamical core under this forcing will be shown.
NASA Astrophysics Data System (ADS)
Weng, Ling; Wang, Bowen; Dapino, M. J.; Sun, Ying; Wang, Li; Cui, Baozhi
2013-05-01
Magnetization versus dynamic stress of Fe81.6Ga18.4 is measured at 4.0 kA/m bias magnetic field and -7.0 MPa compressive pre-stress. The magnetization and stress curves show that magnetization decreases with increasing compressive stress. Magnetization increases with increasing stress frequency at -20 MPa compounded stress. The output voltage from the pickup coil of a Galfenol force sensor is measured when the frequency and amplitude of dynamic force vary. The measurements show that the output voltage increases proportionally with increasing force frequency and amplitude. When the bias magnetic field is 4.0 kA/m, a maximum output voltage of 57 mV is measured at -7.0 MPa compressive pre-stress.
Dynamics of chemically powered nanodimer motors subject to an external force
NASA Astrophysics Data System (ADS)
Tao, Yu-Guo; Kapral, Raymond
2009-07-01
The chemically powered self-propelled directed motions of nanodimer motors confined in a rectangular channel and subject to an applied external conservative force are investigated using hybrid molecular dynamics/multiparticle collision dynamics. The influence of factors, such as dimer sizes, chemical reaction type, and the nature of the interaction potentials between dimer monomers and solvent molecules, on the propulsion force and friction constant are examined. The stall force, for which the nanodimer has zero net velocity, and the thermodynamic efficiency of the motor are calculated. Both irreversible and reversible chemical reactions are considered. The simulation results are compared to theoretical predictions which are able to capture the major features of the self-propelled motion.
Wang, R.; Williams, C. C.
2015-09-15
Dynamic tunneling force microscopy (DTFM) is a scanning probe technique for real space mapping and characterization of individual electronic trap states in non-conductive films with atomic scale spatial resolution. The method is based upon the quantum mechanical tunneling of a single electron back and forth between a metallic atomic force microscopy tip and individual trap states in completely non-conducting surface. This single electron shuttling is measured by detecting the electrostatic force induced on the probe tip at the shuttling frequency. In this paper, the physical basis for the DTFM method is unfolded through a physical model and a derivation of the dynamic tunneling signal as a function of several experimental parameters is shown. Experimental data are compared with the theoretical simulations, showing quantitative consistency and verifying the physical model used. The experimental system is described and representative imaging results are shown.
Wang, R; Williams, C C
2015-09-01
Dynamic tunneling force microscopy (DTFM) is a scanning probe technique for real space mapping and characterization of individual electronic trap states in non-conductive films with atomic scale spatial resolution. The method is based upon the quantum mechanical tunneling of a single electron back and forth between a metallic atomic force microscopy tip and individual trap states in completely non-conducting surface. This single electron shuttling is measured by detecting the electrostatic force induced on the probe tip at the shuttling frequency. In this paper, the physical basis for the DTFM method is unfolded through a physical model and a derivation of the dynamic tunneling signal as a function of several experimental parameters is shown. Experimental data are compared with the theoretical simulations, showing quantitative consistency and verifying the physical model used. The experimental system is described and representative imaging results are shown.
NASA Astrophysics Data System (ADS)
Wang, R.; Williams, C. C.
2015-09-01
Dynamic tunneling force microscopy (DTFM) is a scanning probe technique for real space mapping and characterization of individual electronic trap states in non-conductive films with atomic scale spatial resolution. The method is based upon the quantum mechanical tunneling of a single electron back and forth between a metallic atomic force microscopy tip and individual trap states in completely non-conducting surface. This single electron shuttling is measured by detecting the electrostatic force induced on the probe tip at the shuttling frequency. In this paper, the physical basis for the DTFM method is unfolded through a physical model and a derivation of the dynamic tunneling signal as a function of several experimental parameters is shown. Experimental data are compared with the theoretical simulations, showing quantitative consistency and verifying the physical model used. The experimental system is described and representative imaging results are shown.
Mitotic spindle orients perpendicular to the forces imposed by dynamic shear.
Fernandez, Pablo; Maier, Matthias; Lindauer, Martina; Kuffer, Christian; Storchova, Zuzana; Bausch, Andreas R
2011-01-01
Orientation of the division axis can determine cell fate in the presence of morphogenetic gradients. Understanding how mitotic cells integrate directional cues is therefore an important question in embryogenesis. Here, we investigate the effect of dynamic shear forces on confined mitotic cells. We found that human epithelial cells (hTERT-RPE1) as well as MC3T3 osteoblasts align their mitotic spindle perpendicular to the external force. Spindle orientation appears to be a consequence of cell elongation along the zero-force direction in response to the dynamic shear. This process is a nonlinear response to the strain amplitude, requires actomyosin activity and correlates with redistribution of myosin II. Mechanosteered cells divide normally, suggesting that this mechanism is compatible with biological functions.
A multi-station dynamic-culture force monitor system to study cell mechanobiology.
Peperzak, Katherin A; Gilbert, Thomas W; Wang, James H-C
2004-05-01
To study mechanobiological responses of cells, a dynamic-culture force monitor (D-CFM) system has been developed. The D-CFM extends our previous work to measure contractile forces of a cell-populated collagen gel (CPCG) using a cantilever beam with semiconductor strain gauges. Linear actuators are used in the system and are computer controlled using a LabVIEW interface to independently apply precise motion waveforms to multiple CPCGs. The feasibility tests showed that the new system can detect the differences in force patterns resulting from different motion waveforms imparted to the CPCG. This new system will facilitate the study of the effects of dynamic mechanical loading on cells, remodeling of extracellular matrix, and cell-matrix interactions in vitro.
Shrestha, Uttam M.; Seo, Youngho; Botvinick, Elias H.; Gullberg, Grant T.
2015-01-01
Myocardial perfusion imaging (MPI) using slow rotating large field of view cameras requires spatiotemporal reconstruction of dynamically acquired data to capture the time variation of the radiotracer concentration. In vivo, MPI contains additional degrees of freedom involving unavoidable motion of the heart due to quasiperiodic beating and the effects of respiration, which can severely degrade the quality of the images. This work develops a technique for a single photon emission computed tomography (SPECT) that reconstructs the distribution of the radiotracer concentration in the myocardium using a tensor product of different sets of basis functions that approximately describe the spatiotemporal variation of the radiotracer concentration and the motion of the heart. In this study the temporal B-spline basis functions are chosen to reflect the dynamics of the radiotracer, while the intrinsic deformation and the extrinsic motion of the heart are described by a product of a discrete set of Gaussian basis functions. Reconstruction results are presented showing the dynamics of the tracer in the myocardium as it deforms due to cardiac beating, and is displaced due to respiratory motion. These results are compared with the conventional 4D-spatiotemporal reconstruction method that models only the temporal changes of the tracer activity. The higher dimensional reconstruction method proposed here improves bias, yet the signal-to-noise ratio (SNR) decreases due to redistribution of the counts over the cardiac-respiratory gates. However, there is a trade-off between the number of gates and the number of projections per gate to achieve high contrast images. PMID:26450115
Shrestha, Uttam M.; Seo, Youngho; Botvinick, Elias H.; ...
2015-10-09
Myocardial perfusion imaging (MPI) using slow rotating large field of view cameras requires spatiotemporal reconstruction of dynamically acquired data to capture the time variation of the radiotracer concentration. In vivo, MPI contains additional degrees of freedom involving unavoidable motion of the heart due to quasiperiodic beating and the effects of respiration, which can severely degrade the quality of the images. This work develops a technique for a single photon emission computed tomography (SPECT) that reconstructs the distribution of the radiotracer concentration in the myocardium using a tensor product of different sets of basis functions that approximately describe the spatiotemporal variationmore » of the radiotracer concentration and the motion of the heart. In this study the temporal B-spline basis functions are chosen to reflect the dynamics of the radiotracer, while the intrinsic deformation and the extrinsic motion of the heart are described by a product of a discrete set of Gaussian basis functions. Reconstruction results are presented showing the dynamics of the tracer in the myocardium as it deforms due to cardiac beating, and is displaced due to respiratory motion. We find these results are compared with the conventional 4D-spatiotemporal reconstruction method that models only the temporal changes of the tracer activity. The higher dimensional reconstruction method proposed here improves bias, yet the signal-to-noise ratio (SNR) decreases slightly due to redistribution of the counts over the cardiac-respiratory gates. Additionally, there is a trade-off between the number of gates and the number of projections per gate to achieve high contrast images.« less
Shrestha, Uttam M.; Seo, Youngho; Botvinick, Elias H.; Gullberg, Grant T.
2015-10-09
Myocardial perfusion imaging (MPI) using slow rotating large field of view cameras requires spatiotemporal reconstruction of dynamically acquired data to capture the time variation of the radiotracer concentration. In vivo, MPI contains additional degrees of freedom involving unavoidable motion of the heart due to quasiperiodic beating and the effects of respiration, which can severely degrade the quality of the images. This work develops a technique for a single photon emission computed tomography (SPECT) that reconstructs the distribution of the radiotracer concentration in the myocardium using a tensor product of different sets of basis functions that approximately describe the spatiotemporal variation of the radiotracer concentration and the motion of the heart. In this study the temporal B-spline basis functions are chosen to reflect the dynamics of the radiotracer, while the intrinsic deformation and the extrinsic motion of the heart are described by a product of a discrete set of Gaussian basis functions. Reconstruction results are presented showing the dynamics of the tracer in the myocardium as it deforms due to cardiac beating, and is displaced due to respiratory motion. We find these results are compared with the conventional 4D-spatiotemporal reconstruction method that models only the temporal changes of the tracer activity. The higher dimensional reconstruction method proposed here improves bias, yet the signal-to-noise ratio (SNR) decreases slightly due to redistribution of the counts over the cardiac-respiratory gates. Additionally, there is a trade-off between the number of gates and the number of projections per gate to achieve high contrast images.
Glickel, Steven Z; Gupta, Salil
2006-05-01
Volar ligament reconstruction is an effective technique for treating symptomatic laxity of the CMC joint of the thumb. The laxity may bea manifestation of generalized ligament laxity,post-traumatic, or metabolic (Ehler-Danlos). There construction reduces the shear forces on the joint that contribute to the development and persistence of inflammation. Although there have been only a few reports of the results of volar ligament reconstruction, the use of the procedure to treat Stage I and Stage II disease gives good to excellent results consistently. More advanced stages of disease are best treated by trapeziectomy, with or without ligament reconstruction.
Topological electromotive force from domain-wall dynamics in a ferromagnet
Yang, Shengyuan; Beach, Geoffrey S. D.; Knutson, Carl; Xiao, Di; Zhang, Zhenyu; Tsoi, Maxin; Niu, Qian
2010-01-01
We formulate a local gauge-invariant theory for the electromotive force induced by domain-wall dynamics in a ferromagnet. We demonstrate that this emf generation is a real-space topological pumping effect. The integral of the emf over one pumping period is a quantized topological invariant which does not depend on the details of the domain-wall configuration nor on its detailed dynamics. Based on our theory, the full instanta- neous electric potential distribution can be mapped out by standard electrostatic methods. We also provide further details on our recent experiments which confirmed the emf induced by domain-wall dynamics.
Flexible Piezoelectric Tactile Sensor Array for Dynamic Three-Axis Force Measurement.
Yu, Ping; Liu, Weiting; Gu, Chunxin; Cheng, Xiaoying; Fu, Xin
2016-06-03
A new flexible piezoelectric tactile sensor array based on polyvinylidene fluoride (PVDF) film is proposed for measuring three-axis dynamic contact force distribution. The array consists of six tactile units arranged as a 3 × 2 matrix with spacing 8 mm between neighbor units. In each unit, a PVDF film is sandwiched between four square-shaped upper electrodes and one square-shaped lower electrode, forming four piezoelectric capacitors. A truncated pyramid bump is located above the four piezoelectric capacitors to improve force transmission. A three-axis contact force transmitted from the top of the bump will lead to the four piezoelectric capacitors underneath undergoing different charge changes, from which the normal and shear components of the force can be calculated. A series of dynamic tests have been carried out by exerting sinusoidal forces with amplitudes ranging from 0 to 0.5 N in the x-axis, 0 to 0.5 N in the y-axis, and 0 to 1.5 N in the z-axis, separately. The tactile units show good sensitivities with 14.93, 14.92, and 6.62 pC/N in the x-, y-, and z-axes, respectively. They can work with good linearity, relatively low coupling effect, high repeatability, and acceptable frequency response in the range of 5-400 Hz to both normal and shear load. In addition, dynamic three-axis force measurement has been conducted for all of the tactile units. The average errors between the applied and calculated forces are 10.68% ± 6.84%. Furthermore, the sensor array can be easily integrated onto a curved surface, such as robotic and prosthetic hands, due to its excellent flexibility.
Flexible Piezoelectric Tactile Sensor Array for Dynamic Three-Axis Force Measurement
Yu, Ping; Liu, Weiting; Gu, Chunxin; Cheng, Xiaoying; Fu, Xin
2016-01-01
A new flexible piezoelectric tactile sensor array based on polyvinylidene fluoride (PVDF) film is proposed for measuring three-axis dynamic contact force distribution. The array consists of six tactile units arranged as a 3 × 2 matrix with spacing 8 mm between neighbor units. In each unit, a PVDF film is sandwiched between four square-shaped upper electrodes and one square-shaped lower electrode, forming four piezoelectric capacitors. A truncated pyramid bump is located above the four piezoelectric capacitors to improve force transmission. A three-axis contact force transmitted from the top of the bump will lead to the four piezoelectric capacitors underneath undergoing different charge changes, from which the normal and shear components of the force can be calculated. A series of dynamic tests have been carried out by exerting sinusoidal forces with amplitudes ranging from 0 to 0.5 N in the x-axis, 0 to 0.5 N in the y-axis, and 0 to 1.5 N in the z-axis, separately. The tactile units show good sensitivities with 14.93, 14.92, and 6.62 pC/N in the x-, y-, and z-axes, respectively. They can work with good linearity, relatively low coupling effect, high repeatability, and acceptable frequency response in the range of 5–400 Hz to both normal and shear load. In addition, dynamic three-axis force measurement has been conducted for all of the tactile units. The average errors between the applied and calculated forces are 10.68% ± 6.84%. Furthermore, the sensor array can be easily integrated onto a curved surface, such as robotic and prosthetic hands, due to its excellent flexibility. PMID:27271631
Mori-Zwanzig theory for dissipative forces in coarse-grained dynamics in the Markov limit
NASA Astrophysics Data System (ADS)
Izvekov, Sergei
2017-01-01
We derive alternative Markov approximations for the projected (stochastic) force and memory function in the coarse-grained (CG) generalized Langevin equation, which describes the time evolution of the center-of-mass coordinates of clusters of particles in the microscopic ensemble. This is done with the aid of the Mori-Zwanzig projection operator method based on the recently introduced projection operator [S. Izvekov, J. Chem. Phys. 138, 134106 (2013), 10.1063/1.4795091]. The derivation exploits the "generalized additive fluctuating force" representation to which the projected force reduces in the adopted projection operator formalism. For the projected force, we present a first-order time expansion which correctly extends the static fluctuating force ansatz with the terms necessary to maintain the required orthogonality of the projected dynamics in the Markov limit to the space of CG phase variables. The approximant of the memory function correctly accounts for the momentum dependence in the lowest (second) order and indicates that such a dependence may be important in the CG dynamics approaching the Markov limit. In the case of CG dynamics with a weak dependence of the memory effects on the particle momenta, the expression for the memory function presented in this work is applicable to non-Markov systems. The approximations are formulated in a propagator-free form allowing their efficient evaluation from the microscopic data sampled by standard molecular dynamics simulations. A numerical application is presented for a molecular liquid (nitromethane). With our formalism we do not observe the "plateau-value problem" if the friction tensors for dissipative particle dynamics (DPD) are computed using the Green-Kubo relation. Our formalism provides a consistent bottom-up route for hierarchical parametrization of DPD models from atomistic simulations.
Viking Mars lander 1975 dynamic test model/orbiter developmental test model forced vibration test
NASA Technical Reports Server (NTRS)
Fortenberry, J.; Brownlee, G. R.
1974-01-01
The Viking Mars Lander 1975 dynamic test model and orbiter developmental test model were subjected to forced vibration sine tests. Flight acceptance (FA) and type approval (TA) test levels were applied to the spacecraft structure in a longitudinal test configuration using a 133,440-N (30,000-lb) force shaker. Testing in the two lateral axes (X, Y) was performed at lower levels using four 667-N (150-lb) force shakers. Forced vibration qualification (TA) test levels were successfully imposed on the spacecraft at frequencies down to 10 Hz. Measured responses showed the same character as analytical predictions, and correlation was reasonably good. Because of control system test tolerances, orbiter primary structure generally did not reach the design load limits attained in earlier static testing. A post-test examination of critical orbiter structure disclosed no apparent damage to the structure as a result of the test environment.
Reconstruction of dynamical perturbations in optical systems by opto-mechanical simulation methods
NASA Astrophysics Data System (ADS)
Gilbergs, H.; Wengert, N.; Frenner, K.; Eberhard, P.; Osten, W.
2012-03-01
High-performance objectives pose very strict limitations on errors present in the system. External mechanical influences can induce structural vibrations in such a system, leading to small deviations of the position and tilt of the optical components inside the objective from the undisturbed system. This can have an impact on the imaging performance, causing blurred images or broadened structures in lithography processes. A concept to detect the motion of the components of an optical system is presented and demonstrated on a simulated system. The method is based on a combination of optical simulation together with mechanical simulation and inverse problem theory. On the optical side raytracing is used for the generation of wavefront data of the system in its current state. A Shack-Hartmann sensor is implemented as a model to gather this data. The sensor can capture wavefront data with high repetition rates to resolve the periodic motion of the vibrating parts. The mechanical side of the system is simulated using multibody dynamics. The system is modeled as a set of rigid bodies (lenses, mounts, barrel), represented by rigid masses connected by springs that represent the coupling between the individual parts. External excitations cause the objective to vibrate. The vibration can be characterized by the eigenmodes and eigenfrequencies of the system. Every state of the movement during the vibration can be expressed as a linear combination of the eigenmodes. The reconstruction of the system geometry from the wavefront data is an inverse problem. Therefore, Tikhonov regularization is used in the process in order to achieve more accurate reconstruction results. This method relies on a certain amount of a-priori information on the system. The mechanical properties of the system are a great source of such information. It is taken into account by performing the calculation in the coordinate system spanned by the eigenmodes of the objective and using information on the
Reconstructing the dynamics of the Greenland ice sheet during the last deglaciation
NASA Astrophysics Data System (ADS)
Keisling, Benjamin; DeConto, Robert
2016-04-01
Today, some outlet glaciers of the Greenland ice sheet (GrIS) are rapidly retreating and may mobilize large volumes of interior ice in the coming centuries. The last period that saw such dramatic, sustained retreat of the GrIS was the last deglaciation, when the ice sheet retreated from its Last Glacial Maximum (LGM) extent. Previous studies have used relative sea level observations to constrain changes in ice thickness and retreat timing during the deglaciation (e.g. Fleming and Lambert 2004, Simpson et al. 2009, Lecavalier et al. 2014). Here we build on these studies by isolating the drivers of ice-sheet retreat, and their spatial and temporal dynamics, during this period. Inclusion of ice-cliff failure and hydrofracturing parameterizations in our model has resulted in a better fit to paleodata for the Antarctic ice sheet, but this modeling approach has not been applied to the GrIS. Here we use a three-dimensional hybrid SSA/SIA ice-sheet model (Pollard et al. 2015) at 10km resolution over Greenland to simulate the last deglaciation. Boundary conditions for the last glacial maximum produce an LGM ice sheet with 3.81 meters sea level equivalent (m s.l.e.) of additional ice. The LGM ice sheet advances to the shelf-break in west, south, and east Greenland with an expansive ice shelf extending across Davis Strait. Applying modern atmospheric and oceanic forcing to the LGM ice sheet yields 1.25 and 1.09 m s.l.e. of melt, respectively, and 1.72 m s.l.e. for both. Ocean warming initially results in a higher rate and magnitude of retreat, but increased surface evaporation over open water results in additional accumulation that offsets losses in 10 kyr simulations. Here, we test the sensitivity of the magnitude of deglacial ice-sheet retreat to uncertainty in bedrock elevation and basal slding coefficients, the applied climate forcing, and the mass balance scheme (positive degree-day or energy balance). We also implement a deglacial climate forcing based on recently
Armond, Jonathan W; Harry, Edward F; McAinsh, Andrew D; Burroughs, Nigel J
2015-11-01
Kinetochores are multi-protein complexes that mediate the physical coupling of sister chromatids to spindle microtubule bundles (called kinetochore (K)-fibres) from respective poles. These kinetochore-attached K-fibres generate pushing and pulling forces, which combine with polar ejection forces (PEF) and elastic inter-sister chromatin to govern chromosome movements. Classic experiments in meiotic cells using calibrated micro-needles measured an approximate stall force for a chromosome, but methods that allow the systematic determination of forces acting on a kinetochore in living cells are lacking. Here we report the development of mathematical models that can be fitted (reverse engineered) to high-resolution kinetochore tracking data, thereby estimating the model parameters and allowing us to indirectly compute the (relative) force components (K-fibre, spring force and PEF) acting on individual sister kinetochores in vivo. We applied our methodology to thousands of human kinetochore pair trajectories and report distinct signatures in temporal force profiles during directional switches. We found the K-fibre force to be the dominant force throughout oscillations, and the centromeric spring the smallest although it has the strongest directional switching signature. There is also structure throughout the metaphase plate, with a steeper PEF potential well towards the periphery and a concomitant reduction in plate thickness and oscillation amplitude. This data driven reverse engineering approach is sufficiently flexible to allow fitting of more complex mechanistic models; mathematical models of kinetochore dynamics can therefore be thoroughly tested on experimental data for the first time. Future work will now be able to map out how individual proteins contribute to kinetochore-based force generation and sensing.
McAinsh, Andrew D.; Burroughs, Nigel J.
2015-01-01
Kinetochores are multi-protein complexes that mediate the physical coupling of sister chromatids to spindle microtubule bundles (called kinetochore (K)-fibres) from respective poles. These kinetochore-attached K-fibres generate pushing and pulling forces, which combine with polar ejection forces (PEF) and elastic inter-sister chromatin to govern chromosome movements. Classic experiments in meiotic cells using calibrated micro-needles measured an approximate stall force for a chromosome, but methods that allow the systematic determination of forces acting on a kinetochore in living cells are lacking. Here we report the development of mathematical models that can be fitted (reverse engineered) to high-resolution kinetochore tracking data, thereby estimating the model parameters and allowing us to indirectly compute the (relative) force components (K-fibre, spring force and PEF) acting on individual sister kinetochores in vivo. We applied our methodology to thousands of human kinetochore pair trajectories and report distinct signatures in temporal force profiles during directional switches. We found the K-fibre force to be the dominant force throughout oscillations, and the centromeric spring the smallest although it has the strongest directional switching signature. There is also structure throughout the metaphase plate, with a steeper PEF potential well towards the periphery and a concomitant reduction in plate thickness and oscillation amplitude. This data driven reverse engineering approach is sufficiently flexible to allow fitting of more complex mechanistic models; mathematical models of kinetochore dynamics can therefore be thoroughly tested on experimental data for the first time. Future work will now be able to map out how individual proteins contribute to kinetochore-based force generation and sensing. PMID:26618929
Wheel-rail dynamic forces induced by random vertical track irregularities
NASA Astrophysics Data System (ADS)
Spiroiu, M. A.
2016-08-01
The present paper investigates the wheel-rail dynamic forces produced by railway vehicles in motion, which are an important issue especially for the high-speed rail transport from the point of view of traffic safety, ride quality and undesirable effects on vehicles, on track and on the land in the vicinity of railways. The research is carried out on a model which includes track system, vehicle unsprung mass, vehicle primary suspension and the bogie sprung mass. The wheel-rail dynamic overloads are evaluated assuming random vertical irregularities of the track. The estimation of wheel-rail dynamic forces is made for a range of vehicle speeds up to 300 km/h and the influence of track and vehicle various parameters is investigated.
The Dynamics of Voluntary Force Production in Afferented Muscle Influence Involuntary Tremor
Laine, Christopher M.; Nagamori, Akira; Valero-Cuevas, Francisco J.
2016-01-01
Voluntary control of force is always marked by some degree of error and unsteadiness. Both neural and mechanical factors contribute to these fluctuations, but how they interact to produce them is poorly understood. In this study, we identify and characterize a previously undescribed neuromechanical interaction where the dynamics of voluntary force production suffice to generate involuntary tremor. Specifically, participants were asked to produce isometric force with the index finger and use visual feedback to track a sinusoidal target spanning 5–9% of each individual's maximal voluntary force level. Force fluctuations and EMG activity over the flexor digitorum superficialis (FDS) muscle were recorded and their frequency content was analyzed as a function of target phase. Force variability in either the 1–5 or 6–15 Hz frequency ranges tended to be largest at the peaks and valleys of the target sinusoid. In those same periods, FDS EMG activity was synchronized with force fluctuations. We then constructed a physiologically-realistic computer simulation in which a muscle-tendon complex was set inside of a feedback-driven control loop. Surprisingly, the model sufficed to produce phase-dependent modulation of tremor similar to that observed in humans. Further, the gain of afferent feedback from muscle spindles was critical for appropriately amplifying and shaping this tremor. We suggest that the experimentally-induced tremor may represent the response of a viscoelastic muscle-tendon system to dynamic drive, and therefore does not fall into known categories of tremor generation, such as tremorogenic descending drive, stretch-reflex loop oscillations, motor unit behavior, or mechanical resonance. Our findings motivate future efforts to understand tremor from a perspective that considers neuromechanical coupling within the context of closed-loop control. The strategy of combining experimental recordings with physiologically-sound simulations will enable thorough
Zhang, Lin; Bai, Shu; Sun, Yan
2011-06-01
Modeling, especially the force field, is crucial for the accuracy of molecular dynamics (MD) simulations. In order for more accurate description of adsorption and desorption behaviors of lysozyme in hydrophobic charge induction chromatography (HCIC), the Martini coarse-grained (CG) force field has been modified based on the statistical analysis and comparison of an all-atom (AA) force field, GROMOS96 43A1, and the Martini force field. The parameters describing the protein-adsorbent interactions have been adjusted to avoid too strong and unrealistic adsorption of lysozyme on the agarose matrix and HCIC ligands. It is found that the adsorption and desorption behaviors monitored using the modified Martini force field and MD simulation are consistent with previous simulation results with 46-bead β-barrel model protein. Repeated adjustment of both protein position and orientation is necessary to generate enough contacts for a stable adsorption. After reducing the pH in the mobile phase, the lysozyme-ligand electrostatic repulsion leads to protein desorption. In the adsorption process, little conformational transition of lysozyme is observed due to its stable structure, which is in line with previous experimental observations. So, it is concluded that after appropriate modification, the Martini force field can be used to examine the HCIC process of lysozyme. The modification strategy has thus extended the applicability of the Martini force field to protein chromatography, and it is expected to facilitate studies of exploring the molecular details in adsorption chromatography of proteins.
Chandrasekhar Potluri,; Madhavi Anugolu; Marco P. Schoen; D. Subbaram Naidu
2013-08-01
In this work, an array of three surface Electrography (sEMG) sensors are used to acquired muscle extension and contraction signals for 18 healthy test subjects. The skeletal muscle force is estimated using the acquired sEMG signals and a Non-linear Wiener Hammerstein model, relating the two signals in a dynamic fashion. The model is obtained from using System Identification (SI) algorithm. The obtained force models for each sensor are fused using a proposed fuzzy logic concept with the intent to improve the force estimation accuracy and resilience to sensor failure or misalignment. For the fuzzy logic inference system, the sEMG entropy, the relative error, and the correlation of the force signals are considered for defining the membership functions. The proposed fusion algorithm yields an average of 92.49% correlation between the actual force and the overall estimated force output. In addition, the proposed fusionbased approach is implemented on a test platform. Experiments indicate an improvement in finger/hand force estimation.
Hyland, Callen; Mertz, Aaron F; Forscher, Paul; Dufresne, Eric
2014-05-14
Growth cones of elongating neurites exert force against the external environment, but little is known about the role of force in outgrowth or its relationship to the mechanical organization of neurons. We used traction force microscopy to examine patterns of force in growth cones of regenerating Aplysia bag cell neurons. We find that traction is highest in the peripheral actin-rich domain and internal stress reaches a plateau near the transition between peripheral and central microtubule-rich domains. Integrating stress over the area of the growth cone reveals that total scalar force increases with area but net tension on the neurite does not. Tensions fall within a limited range while a substantial fraction of the total force can be balanced locally within the growth cone. Although traction continuously redistributes during extension and retraction of the peripheral domain, tension is stable over time, suggesting that tension is a tightly regulated property of the neurite independent of growth cone dynamics. We observe that redistribution of traction in the peripheral domain can reorient the end of the neurite shaft. This suggests a role for off-axis force in growth cone turning and neuronal guidance.
NASA Astrophysics Data System (ADS)
Kang, Hyun-Gyu; Cheong, Hyeong-Bin; Jeong, Han-Byeol; Kim, Won-Ho
2015-04-01
Response characteristics of the spectral element hydrostatic dynamical core on the cubed sphere to the global topographic forcing are investigated in terms of pressure gradient error, and it is compared with the spherical harmonics hydrostatic dynamical core. The vertical hybrid-pressure coordinate and finite difference method are introduced to both dynamical cores, and explicit and implicit hyper-diffusion schemes are applied to spectral element dynamical core and spherical harmonics dynamical core, respectively. The model atmosphere at initial time is set to the quiescent environment so that the term affecting on the time tendency of the momentum equation at the first time step is the pressure gradient term only which is influenced by the observed surface topography. During 6 days of time integration, the spurious flow is generated due to inaccurate numerical approximations of pressure gradient term for each dynamical core. High zonal wind speed which can be regarded as numerical error is occurred commonly in two dynamical cores around steep topography (e.g., the Tibetan Plateau, the Rocky Mountains, and the Andes Mountains), but the maximum zonal wind speed at day 6 of spectral element dynamical core is 8-9 times larger than that of spherical harmonics dynamical core. The vertically averaged kinetic energy spectrum at day 6 shows very different trend between two dynamical cores. By performing the experiments with the scale-separated topography, it turns out that these kinetic energy spectrum trends are mainly caused by the small-scale topography. A simple change of pressure gradient term into log-pressure form is found to significantly reduce numerical error (up to 63% of maximum wind speed in case of spectral element dynamical core) and noise-like small-scale phenomena.
The validation of a human force model to predict dynamic forces resulting from multi-joint motions
NASA Technical Reports Server (NTRS)
Pandya, Abhilash K.; Maida, James C.; Aldridge, Ann M.; Hasson, Scott M.; Woolford, Barbara J.
1992-01-01
The development and validation is examined of a dynamic strength model for humans. This model is based on empirical data. The shoulder, elbow, and wrist joints were characterized in terms of maximum isolated torque, or position and velocity, in all rotational planes. This data was reduced by a least squares regression technique into a table of single variable second degree polynomial equations determining torque as a function of position and velocity. The isolated joint torque equations were then used to compute forces resulting from a composite motion, in this case, a ratchet wrench push and pull operation. A comparison of the predicted results of the model with the actual measured values for the composite motion indicates that forces derived from a composite motion of joints (ratcheting) can be predicted from isolated joint measures. Calculated T values comparing model versus measured values for 14 subjects were well within the statistically acceptable limits and regression analysis revealed coefficient of variation between actual and measured to be within 0.72 and 0.80.
Molecular dynamics simulations of a new branched antimicrobial peptide: A comparison of force fields
NASA Astrophysics Data System (ADS)
Li, Jianguo; Lakshminarayanan, Rajamani; Bai, Yang; Liu, Shouping; Zhou, Lei; Pervushin, Konstantin; Verma, Chandra; Beuerman, Roger W.
2012-12-01
Branched antimicrobial peptides are promising as a new class of antibiotics displaying high activity and low toxicity and appear to work through a unique mechanism of action. We explore the structural dynamics of a covalently branched 18 amino acid peptide (referred to as B2088) in aqueous and membrane mimicking environments through molecular dynamics (MD) simulations. Towards this, we carry out conventional MD simulations and supplement these with replica exchange simulations. The simulations are carried out using four different force fields that are commonly employed for simulating biomolecular systems. These force fields are GROMOS53a6, CHARMM27 with cMAP, CHARMM27 without cMAP and AMBER99sb. The force fields are benchmarked against experimental data available from circular dichroism and nuclear magnetic resonance spectroscopies, and show that CHARMM27 without cMAP correction is the most successful in reproducing the structural dynamics of B2088 both in water and in the presence of micelles. Although the four force fields predict different structures of B2088, they all show that B2088 stabilizes against the head group of the lipid through hydrogen bonding of its Lys and Arg side chains. This leads us to hypothesize that B2088 is unlikely to penetrate into the hydrophobic region of the membrane owing to the high free energy costs of transfer from water, and possibly acts by carpeting and thus disrupting the membrane.
Molecular dynamic simulation of tip-polymer interaction in tapping-mode atomic force microscopy
NASA Astrophysics Data System (ADS)
Onofrio, N.; Venturini, G. N.; Strachan, A.
2013-09-01
We present a molecular dynamic study of the interaction between an amorphous silica tip (SiO2) and an amorphous poly-(methyl-methacrylate) substrate under conditions relevant for tapping-mode atomic force microscopy. To capture the actual dynamics of the tip, we use the dynamic contact simulation method [Kim et al., J. Appl. Phys. 112, 094325 (2012)]. We obtain force-displacement relationships both for neat polymer substrates and a sample with a sub-surface nanotube and extract the local stiffness and energy dissipation per cycle. The simulations capture non-trivial aspects of the interaction that originate from the viscoelastic nature of the polymer including an increase in repulsive interaction force during approach with tip velocity and an increase in adhesion during retraction with decreasing tip velocity. Scans of local stiffness and dissipation over the samples reveal intrinsic variability in the amorphous polymer but also the effect of local surface topography on the extracted properties as well as the ability of the method to detect a sub-surface nanotube. This insight and quantitative data should be valuable to interpret the results of atomic force microscopy studies.
Solvation structure and dynamics of Ni2+(aq) from a polarizable force field
NASA Astrophysics Data System (ADS)
Mareš, Jiří; Vaara, Juha
2014-10-01
An aqueous solution of Ni2+ has often been used as a prototypic transition-metal system for experimental and theoretical studies in nuclear and electron-spin magnetic resonance (NMR and ESR). Molecular dynamics (MD) simulation of Ni2+(aq) has been a part of many of these studies. As a transition metal complex, its MD simulation is particularly difficult using common force fields. In this work, we parameterize the Ni2+ ion for a simulation of the aqueous solution within the modern polarizable force field AMOEBA. We show that a successful parameterization is possible for this specific case when releasing the physical interpretation of the electrostatic and polarization parameters of the force field. In doing so, particularly the Thole damping parameter and also the ion charge and polarizability were used as fitting parameters. The resulting parameterizations give in a MD simulation good structural and dynamical properties of the [Ni(H2O)6 ] 2 + complex, along with the expected excellent performance of AMOEBA for the water solvent. The presented parameterization is appropriate for high-accuracy simulations of both structural and dynamic properties of Ni2+(aq). This work documents possible approaches of parameterization of a transition metal within the AMOEBA force field.
Dynamic force response of spherical hydrostatic journal bearings for cryogenic applications
NASA Astrophysics Data System (ADS)
Andres, Luis San
1994-07-01
Hydrostatic journal bearings are ideal elements to replace roller bearings as rotor support elements in cryogenic turbomachinery. These bearings will be used for primary space-power applications due to their long lifetime, low friction and wear, large load capacity, and direct stiffness and damping force coefficients. The performance characteristics of turbulent flow, orifice compensated, spherical hydrostatic journal bearings are presented. These bearing allow tolerance for shaft misalignment without force degradation and are able to support axial loads, thus providing a design configuration which could be used efficiently on high-performance turbomachinery. Bulk-flow mass and momentum equations for the motion of a variable properties liquid on the thin film bearing lands are solved numerically. Predictions of load capacity and force coefficients for a six recess, spherical hydrostatic bearing in a liquid oxygen environment are presented. Fluid film axial forces and dynamic coefficients of a magnitude about 20 percent of the radial load capacity are calculated for the case analyzed. Fluid inertia effects, advective and centrifugal, are found to greatly affect the static and dynamic force characteristics of the bearing studied.
Mapping the dynamics of force transduction at cell–cell junctions of epithelial clusters
Ng, Mei Rosa; Besser, Achim; Brugge, Joan S; Danuser, Gaudenz
2014-01-01
Force transduction at cell-cell adhesions regulates tissue development, maintenance and adaptation. We developed computational and experimental approaches to quantify, with both sub-cellular and multi-cellular resolution, the dynamics of force transmission in cell clusters. Applying this technology to spontaneously-forming adherent epithelial cell clusters, we found that basal force fluctuations were coupled to E-cadherin localization at the level of individual cell-cell junctions. At the multi-cellular scale, cell-cell force exchange depended on the cell position within a cluster, and was adaptive to reconfigurations due to cell divisions or positional rearrangements. Importantly, force transmission through a cell required coordinated modulation of cell-matrix adhesion and actomyosin contractility in the cell and its neighbors. These data provide insights into mechanisms that could control mechanical stress homeostasis in dynamic epithelial tissues, and highlight our methods as a resource for the study of mechanotransduction in cell-cell adhesions. DOI: http://dx.doi.org/10.7554/eLife.03282.001 PMID:25479385
Tadano, T; Gohda, Y; Tsuneyuki, S
2014-06-04
A systematic method to calculate anharmonic force constants of crystals is presented. The method employs the direct-method approach, where anharmonic force constants are extracted from the trajectory of first-principles molecular dynamics simulations at high temperature. The method is applied to Si where accurate cubic and quartic force constants are obtained. We observe that higher-order correction is crucial to obtain accurate force constants from the trajectory with large atomic displacements. The calculated harmonic and anharmonic force constants are, then, combined with the Boltzmann transport equation (BTE) and non-equilibrium molecular dynamics (NEMD) methods in calculating the thermal conductivity. The BTE approach successfully predicts the lattice thermal conductivity of bulk Si, whereas NEMD shows considerable underestimates. To evaluate the linear extrapolation method employed in NEMD to estimate bulk values, we analyze the size dependence in NEMD based on BTE calculations. We observe strong nonlinearity in the size dependence of NEMD in Si, which can be ascribed to acoustic phonons having long mean-free-paths and carrying considerable heat. Subsequently, we also apply the whole method to a thermoelectric material Mg2Si and demonstrate the reliability of the NEMD method for systems with low thermal conductivities.
The Dam1 kinetochore complex harnesses microtubule dynamics to produce force and movement.
Asbury, Charles L; Gestaut, Daniel R; Powers, Andrew F; Franck, Andrew D; Davis, Trisha N
2006-06-27
Kinetochores remain attached to microtubule (MT) tips during mitosis even as the tips assemble and disassemble under their grip, allowing filament dynamics to produce force and move chromosomes. The specific proteins that mediate tip attachment are uncertain, and the mechanism of MT-dependent force production is unknown. Recent work suggests that the Dam1 complex, an essential component of kinetochores in yeast, may contribute directly to kinetochore-MT attachment and force production, perhaps by forming a sliding ring encircling the MT. To test these hypotheses, we developed an in vitro motility assay where beads coated with pure recombinant Dam1 complex were bound to the tips of individual dynamic MTs. The Dam1-coated beads remained tip-bound and underwent assembly- and disassembly-driven movement over approximately 3 microm, comparable to chromosome displacements in vivo. Dam1-based attachments to assembling tips were robust, supporting 0.5-3 pN of tension applied with a feedback-controlled optical trap as the MTs lengthened approximately 1 microm. The attachments also harnessed energy from MT disassembly to generate movement against tension. Reversing the direction of force (i.e., switching to compressive force) caused the attachments to disengage the tip and slide over the filament, but sliding was blocked by areas where the MT was anchored to a coverslip, consistent with a coupling structure encircling the filament. Our findings demonstrate how the Dam1 complex may contribute directly to MT-driven chromosome movement.
Soules, T F; Gilmer, G H; Matthews, M J; Stolken, J S; Feit, M D
2010-10-21
We compare force fields (FF's) that have been used in molecular dynamic (MD) simulations of silica in order to assess their applicability for use in simulating IR-laser damage mitigation. Although pairwise FF?s obtained by fitting quantum mechanical calculations such as the BKS and CHIK potentials have been shown to reproduce many of the properties of silica including the stability of silica polymorphs and the densification of the liquid, we show that melting temperatures and fictive temperatures are much too high. Softer empirical force fields give liquid and glass properties at experimental temperatures but may not predict all properties important to laser mitigation experiments.
Static and dynamic stability of the guidance force in a side-suspended HTS maglev system
NASA Astrophysics Data System (ADS)
Zhou, Dajin; Cui, Chenyu; Zhao, Lifeng; Zhang, Yong; Wang, Xiqing; Zhao, Yong
2017-02-01
The static and dynamic stability of the guidance force in a side-suspended HTS-PMG (permanent magnetic guideway) system were studied theoretically and experimentally. It is found that there are two types of guidance force that exist in the HTS-PMG system, which are sensitive to the levitation gap and the arrangement of YBCO bulks around the central axis of the PMG. An optimized YBCO array was used to stabilize the system, which enabled a side-suspended HTS-PMG maglev vehicle to run stably at 102 km h-1 on a circular test track with 6.5 m in diameter.
A novel proof of the DFT formula for the interatomic force field of Molecular Dynamics
NASA Astrophysics Data System (ADS)
Morante, S.; Rossi, G. C.
2017-02-01
We give a novel and simple proof of the DFT expression for the interatomic force field that drives the motion of atoms in classical Molecular Dynamics, based on the observation that the ground state electronic energy, seen as a functional of the external potential, is the Legendre transform of the Hohenberg-Kohn functional, which in turn is a functional of the electronic density. We show in this way that the so-called Hellmann-Feynman analytical formula, currently used in numerical simulations, actually provides the exact expression of the interatomic force.
A Database of Force-Field Parameters, Dynamics, and Properties of Antimicrobial Compounds.
Malloci, Giuliano; Vargiu, Attilio Vittorio; Serra, Giovanni; Bosin, Andrea; Ruggerone, Paolo; Ceccarelli, Matteo
2015-08-03
We present an on-line database of all-atom force-field parameters and molecular properties of compounds with antimicrobial activity (mostly antibiotics and some beta-lactamase inhibitors). For each compound, we provide the General Amber Force Field parameters for the major species at physiological pH, together with an analysis of properties of interest as extracted from µs-long molecular dynamics simulations in explicit water solution. The properties include number and population of structural clusters, molecular flexibility, hydrophobic and hydrophilic molecular surfaces, the statistics of intraand inter-molecular H-bonds, as well as structural and dynamical properties of solvent molecules within first and second solvation shells. In addition, the database contains several key molecular parameters, such as energy of the frontier molecular orbitals, vibrational properties, rotational constants, atomic partial charges and electric dipole moment, computed by Density Functional Theory. The present database (to our knowledge the first extensive one including dynamical properties) is part of a wider project aiming to build-up a database containing structural, physico-chemical and dynamical properties of medicinal compounds using different force-field parameters with increasing level of complexity and reliability. The database is freely accessible at http://www.dsf.unica.it/translocation/db/.
Dynamic topology multi force particle swarm optimization algorithm and its application
NASA Astrophysics Data System (ADS)
Chen, Dongning; Zhang, Ruixing; Yao, Chengyu; Zhao, Zheyu
2016-01-01
Particle swarm optimization (PSO) algorithm is an effective bio-inspired algorithm but it has shortage of premature convergence. Researchers have made some improvements especially in force rules and population topologies. However, the current algorithms only consider a single kind of force rules and lack consideration of comprehensive improvement in both multi force rules and population topologies. In this paper, a dynamic topology multi force particle swarm optimization (DTMFPSO) algorithm is proposed in order to get better search performance. First of all, the principle of the presented multi force particle swarm optimization (MFPSO) algorithm is that different force rules are used in different search stages, which can balance the ability of global and local search. Secondly, a fitness-driven edge-changing (FE) topology based on the probability selection mechanism of roulette method is designed to cut and add edges between the particles, and the DTMFPSO algorithm is proposed by combining the FE topology with the MFPSO algorithm through concurrent evolution of both algorithm and structure in order to further improve the search accuracy. Thirdly, Benchmark functions are employed to evaluate the performance of the DTMFPSO algorithm, and test results show that the proposed algorithm is better than the well-known PSO algorithms, such as µPSO, MPSO, and EPSO algorithms. Finally, the proposed algorithm is applied to optimize the process parameters for ultrasonic vibration cutting on SiC wafer, and the surface quality of the SiC wafer is improved by 12.8% compared with the PSO algorithm in Ref. [25]. This research proposes a DTMFPSO algorithm with multi force rules and dynamic population topologies evolved simultaneously, and it has better search performance.
Dynamic force response of spherical hydrostatic journal bearing for cryogenic applications
NASA Technical Reports Server (NTRS)
Sanandres, Luis
1994-01-01
Hydrostatic Journal Bearings (HJB's) are reliable and resilient fluid film rotor support elements ideal to replace roller bearings in cryogenic turbomachinery. HJB' will be used for primary space-power applications due to their long lifetime, low friction and wear, large load capacity, large direct stiffness, and damping force coefficients. An analysis for the performance characteristics of turbulent flow, orifice compensated, spherical hydrostatic journal bearings (HJB's) is presented. Spherical bearings allow tolerance for shaft misalignment without force performance degradation and have also the ability to support axial loads. The spherical HJB combines these advantages to provide a bearing design which could be used efficiently on high performance turbomachinery. The motion of a barotropic liquid on the thin film bearing lands is described by bulk-flow mass and momentum equations. These equations are solved numerically using an efficient CFD method. Numerical predictions of load capacity and force coefficients for a 6 recess, spherical HJB in a LO2 environment are presented. Fluid film axial forces and force coefficients of a magnitude about 20% of the radial load capacity are predicted for the case analyzed. Fluid inertia effects, advective and centrifugal, are found to affect greatly the static and dynamic force performance of the bearing studied.
Mechanical dynamics in live cells and fluorescence-based force/tension sensors.
Yang, Chao; Zhang, Xiaohan; Guo, Yichen; Meng, Fanjie; Sachs, Frederick; Guo, Jun
2015-08-01
Three signaling systems play the fundamental roles in modulating cell activities: chemical, electrical, and mechanical. While the former two are well studied, the mechanical signaling system is still elusive because of the lack of methods to measure structural forces in real time at cellular and subcellular levels. Indeed, almost all biological processes are responsive to modulation by mechanical forces that trigger dispersive downstream electrical and biochemical pathways. Communication among the three systems is essential to make cells and tissues receptive to environmental changes. Cells have evolved many sophisticated mechanisms for the generation, perception and transduction of mechanical forces, including motor proteins and mechanosensors. In this review, we introduce some background information about mechanical dynamics in live cells, including the ubiquitous mechanical activity, various types of mechanical stimuli exerted on cells and the different mechanosensors. We also summarize recent results obtained using genetically encoded FRET (fluorescence resonance energy transfer)-based force/tension sensors; a new technique used to measure mechanical forces in structural proteins. The sensors have been incorporated into many specific structural proteins and have measured the force gradients in real time within live cells, tissues, and animals.
Gramicidin A channel as a test ground for molecular dynamics force fields.
Allen, Toby W; Baştuğ, Turgut; Kuyucak, Serdar; Chung, Shin-Ho
2003-04-01
We use the well-known structural and functional properties of the gramicidin A channel to test the appropriateness of force fields commonly used in molecular dynamics (MD) simulations of ion channels. For this purpose, the high-resolution structure of the gramicidin A dimer is embedded in a dimyristoylphosphatidylcholine bilayer, and the potential of mean force of a K(+) ion is calculated along the channel axis using the umbrella sampling method. Calculations are performed using two of the most common force fields in MD simulations: CHARMM and GROMACS. Both force fields lead to large central barriers for K(+) ion permeation, that are substantially higher than those deduced from the physiological data by inverse methods. In long MD simulations lasting over 60 ns, several ions are observed to enter the binding site but none of them crossed the channel despite the presence of a large driving field. The present results, taken together with many earlier studies, highlights the shortcomings of the standard force fields used in MD simulations of ion channels and calls for construction of more appropriate force fields for this purpose.
Force Generation in Single Conventional Actomyosin Complexes under High Dynamic Load
Takagi, Yasuharu; Homsher, Earl E.; Goldman, Yale E.; Shuman, Henry
2006-01-01
The mechanical load borne by a molecular motor affects its force, sliding distance, and its rate of energy transduction. The control of ATPase activity by the mechanical load on a muscle tunes its efficiency to the immediate task, increasing ATP hydrolysis as the power output increases at forces less than isometric (the Fenn effect) and suppressing ATP hydrolysis when the force is greater than isometric. In this work, we used a novel ‘isometric’ optical clamp to study the mechanics of myosin II molecules to detect the reaction steps that depend on the dynamic properties of the load. An actin filament suspended between two beads and held in separate optical traps is brought close to a surface that is sparsely coated with motor proteins on pedestals of silica beads. A feedback system increases the effective stiffness of the actin by clamping the force on one of the beads and moving the other bead electrooptically. Forces measured during actomyosin interactions are increased at higher effective stiffness. The results indicate that single myosin molecules transduce energy nearly as efficiently as whole muscle and that the mechanical control of the ATP hydrolysis rate is in part exerted by reversal of the force-generating actomyosin transition under high load without net utilization of ATP. PMID:16326899
Mechanical dynamics in live cells and fluorescence-based force/tension sensors
Yang, Chao; Zhang, Xiaohan; Guo, Yichen; Meng, Fanjie; Sachs, Frederick; Guo, Jun
2016-01-01
Three signaling systems play the fundamental roles in modulating cell activities: chemical, electrical, and mechanical. While the former two are well studied, the mechanical signaling system is still elusive because of the lack of methods to measure structural forces in real time at cellular and subcellular levels. Indeed, almost all biological processes are responsive to modulation by mechanical forces that trigger dispersive downstream electrical and biochemical pathways. Communication among the three systems is essential to make cells and tissues receptive to environmental changes. Cells have evolved many sophisticated mechanisms for the generation, perception and transduction of mechanical forces, including motor proteins and mechanosensors. In this review, we introduce some background information about mechanical dynamics in live cells, including the ubiquitous mechanical activity, various types of mechanical stimuli exerted on cells and the different mechanosensors. We also summarize recent results obtained using genetically encoded FRET (fluorescence resonance energy transfer)-based force/tension sensors; a new technique used to measure mechanical forces in structural proteins. The sensors have been incorporated into many specific structural proteins and have measured the force gradients in real time within live cells, tissues, and animals. PMID:25958335
Relative dynamics and control of spacecraft formations subject to lorentz force perturbations
NASA Astrophysics Data System (ADS)
Abdel-Aziz, Yehia; Shoaib, Muhammad
A spacecraft that generates an electrostatic charge on its surface in the Earth magnetic field will be subject to a perturbative Lorentz force. The Lorentz force acting on an electrostatically charged spacecraft may provide a useful thrust for controlling a spacecraft’s orbit. We develop Lorentz force as a function of the orbital elements. The orbital perturbations of a charged spacecraft by Lorentz force in the Earth’s magnetic field are investigated using the Gauss variation of the Lagrange planetary Equations. The Earth’s magnetic field is modeled as a tilted dipole. The perturbations in the orbital elements depend on the value of the charge to mass ratio (q/m). The dynamical model of relative motion developed leads to approximate analytical solutions for the motion of a charged spacecraft subject to Lorentz force. The chief spacecraft’s reference orbit is taken to be either circular or elliptical. The deputy spacecraft is capable of accumulating electrostatic charge. The numerical results show that Lorentz force can be used to change the in-track position and plane orbit of the spacecraft. The numerical analysis shows that the target trajectory of the Lorentz spacecraft can be reached by varying the ratio (q/m) in different Low Earth Orbits.
NASA Astrophysics Data System (ADS)
van der Bilt, Willem G. M.; Bakke, Jostein; Vasskog, Kristian; D'Andrea, William J.; Bradley, Raymond S.; Ólafsdóttir, Sædis
2015-10-01
The Arctic is warming faster than anywhere else on Earth. Holocene proxy time-series are increasingly used to put this amplified response in perspective by understanding Arctic climate processes beyond the instrumental period. However, available datasets are scarce, unevenly distributed and often of coarse resolution. Glaciers are sensitive recorders of climate shifts and variations in rock-flour production transfer this signal to the lacustrine sediment archives of downstream lakes. Here, we present the first full Holocene record of continuous glacier variability on Svalbard from glacier-fed Lake Hajeren. This reconstruction is based on an undisturbed lake sediment core that covers the entire Holocene and resolves variability on centennial scales owing to 26 dating points. A toolbox of physical, geochemical (XRF) and magnetic proxies in combination with multivariate statistics has allowed us to fingerprint glacier activity in addition to other processes affecting the sediment record. Evidence from variations in sediment density, validated by changes in Ti concentrations, reveal glaciers remained present in the catchment following deglaciation prior to 11,300 cal BP, culminating in a Holocene maximum between 9.6 and 9.5 ka cal BP. Correspondence with freshwater pulses from Hudson Strait suggests that Early Holocene glacier advances were driven by the melting Laurentide Ice Sheet (LIS). We find that glaciers disappeared from the catchment between 7.4 and 6.7 ka cal BP, following a late Hypsithermal. Glacier reformation around 4250 cal BP marks the onset of the Neoglacial, supporting previous findings. Between 3380 and 3230 cal BP, we find evidence for a previously unreported centennial-scale glacier advance. Both events are concurrent with well-documented episodes of North Atlantic cooling. We argue that this brief forcing created suitable conditions for glaciers to reform in the catchment against a background of gradual orbital cooling. These findings highlight the
NASA Astrophysics Data System (ADS)
Greiner, Maximilian; Elts, Ekaterina; Schneider, Julian; Reuter, Karsten; Briesen, Heiko
2014-11-01
The CHARMM, general Amber and OPLS force fields are evaluated for their suitability in simulating the molecular dynamics of the dissolution of the hydrophobic, small-molecule active pharmaceutical ingredients aspirin, ibuprofen, and paracetamol in aqueous media. The force fields are evaluated by comparison with quantum chemical simulations or experimental references on the basis of the following capabilities: accurately representing intra- and intermolecular interactions, appropriately reproducing crystal lattice parameters, adequately describing thermodynamic properties, and the qualitative description of the dissolution behavior. To make this approach easily accessible for evaluating the dissolution properties of novel drug candidates in the early stage of drug development, the force field parameter files are generated using online resources such as the SWISS PARAM servers, and the software packages ACPYPE and Maestro. All force fields are found to reproduce the intermolecular interactions with a reasonable degree of accuracy, with the general Amber and CHARMM force fields showing the best agreement with quantum mechanical calculations. A stable crystal bulk structure is obtained for all model substances, except for ibuprofen, where the reproductions of the lattice parameters and observed crystal stability are considerably poor for all force fields. The heat of solution used to evaluate the solid-to-solution phase transitions is found to be in qualitative agreement with the experimental data for all combinations tested, with the results being quantitatively optimum for the general Amber and CHARMM force fields. For aspirin and paracetamol, stable crystal-water interfaces were obtained. The (100), (110), (011) and (001) interfaces of aspirin or paracetamol and water were simulated for each force field for 30 ns. Although generally expected as a rare event, in some of the simulations, dissolution is observed at 310 K and ambient pressure conditions.
Capillary climb dynamics in the limits of prevailing capillary and gravity force.
Bijeljic, B; Markicevic, B; Navaz, H K
2011-05-01
The dynamics of capillary climb of a wetting liquid into a porous medium that is opposed by gravity force is studied numerically. We use the capillary network model, in which an actual porous medium is represented as a network of pores and throats, each following a predefined size distribution function. The liquid potential in the pores along the liquid interface within the network is calculated as a result of capillary and gravity forces. The solution is general, and accounts for changes in the climbing height and climbing velocity. The numerical results for the capillary climb reveal that there are at least two distinct flow mechanisms. Initially, the flow is characterized by high climbing velocity, in which the capillary force is higher than the gravity force, and the flow is the viscous force dominated. For this single-phase flow, the Washburn equation can be used to predict the changes of climbing height over time. Later, for longer times and larger climbing height, the capillary and gravity forces become comparable, and one observes a slower increase in the climbing height as a function of time. Due to the two forces being comparable, the gas-liquid sharp interface transforms into flow front, where the multiphase flow develops. The numerical results from this study, expressed as the climbing height as a power law function of time, indicate that the two powers, which correspond to the two distinct mechanisms, differ significantly. The comparison of the powers with experimental data indicates good agreement. Furthermore, the power value from the Washburn solution is also analyzed, where it should be equal to 1/2 for purely viscous force driven flow. This is in contrast to the power value of ∼0.43 that is found experimentally. We show from the numerical solution that this discrepancy is due to the momentum dissipation on the liquid interface.
Resolving sub-cellular force dynamics using arrays of magnetic microposts
NASA Astrophysics Data System (ADS)
Reich, Daniel
2010-03-01
The biological response of cells to mechanical forces is integral to both normal cell function and the progression of many diseases, such as hypertensive vascular wall thickening. This likely results from the fact that mechanical stresses can directly affect many cellular processes, including signal transduction, gene expression, growth, differentiation, and survival. The need to understand the relationship between applied forces and the mechanical response of cells as a critical step towards understanding mechanotransduction calls for tools that can apply forces to cells while measuring their contractile response. This talk will describe an approach that simultaneously allows local mechanical stimulation of the adherent surface of a cell and spatially resolved measurement of the local force fields generated throughout the cell in response to this stimulation. Cells are cultured on the top surfaces of arrays of micrometer-scale posts made from a flexible elastomer (PDMS), and the contractile forces generated by an adherent cell bend the posts. Measurements of the displacement of each post allow the contractile force field of the cell to be mapped out with sub-cellular precision. To apply forces to cells, rod- shaped magnetic nanoparticles are embedded in some of the posts so that externally applied magnetic fields selectively deform these ``magnetic posts,'' thereby exerting tunable local, mechanical stresses to the adherent surface of attached cells. Alternatively, magnetic particles bound to or internalized by the cell may be employed to apply forces and torques to the cell. With either approach, measuring the deflection of the surrounding non-magnetic posts probes the full mechanical response of the cell to these stresses. Results that illustrate the temporal dynamics and spatial distribution of the non-local response of fibroblasts and smooth muscle cells to local stresses will be discussed.
Malkin, A J; Plomp, M; Leighton, T J; McPherson, A; Wheeler, K E
2005-04-12
Progress in structural biology very much depends upon the development of new high-resolution techniques and tools. Despite decades of study of viruses, bacteria and bacterial spores and their pressing importance in human medicine and biodefense, many of their structural properties are poorly understood. Thus, characterization and understanding of the architecture of protein surface and internal structures of pathogens is critical to elucidating mechanisms of disease, immune response, physicochemical properties, environmental resistance and development of countermeasures against bioterrorist agents. Furthermore, even though complete genome sequences are available for various pathogens, the structure-function relationships are not understood. Because of their lack of symmetry and heterogeneity, large human pathogens are often refractory to X-ray crystallographic analysis or reconstruction by cryo-electron microscopy (cryo-EM). An alternative high-resolution method to examine native structure of pathogens is atomic force microscopy (AFM), which allows direct visualization of macromolecular assemblies at near-molecular resolution. The capability to image single pathogen surfaces at nanometer scale in vitro would profoundly impact mechanistic and structural studies of pathogenesis, immunobiology, specific cellular processes, environmental dynamics and biotransformation.
A review of dynamic stability of repulsive-force maglev suspension systems
Cai, Y.; Rote, D.M.
1998-07-01
Vehicle dynamics and the need to satisfy ride quality requirements have long been recognized as crucial to the commercial success of passenger-carrying transportation systems. Design concepts for maglev systems are no exception. Early maglev investigators and designers were well aware of the importance of ride quality and took care to ensure that their designs would meet acceptable ride quality standards. In contrast, the dynamic stability of electrodynamic suspension (EDS) systems, which has obvious implications for system safety and cost as well as for ride quality, has not received nearly as much attention. Because of the well-known under-damped nature of EDS suspension systems and the observation of instabilities in laboratory-scale model systems, it is prudent to develop a better understanding of vehicle stability characteristics. The work reported in this was undertaken with the intention of summarizing information that has been accumulated worldwide and that is relevant to dynamic stability of repulsive-force maglev suspension systems, assimilating that information, and gaining an understanding of the factors that influence that stability. Included in the paper is a discussion and comparison of results acquired from some representative tests of large-scale vehicles on linear test tracks, together with analytical and laboratory-scale investigations of stability and dynamics of EDS systems. This paper will also summarize the R and D activities at Argonne National Laboratory (ANL) since 1991 to study the nature of the forces that are operative in an EDS system and the dynamic stability of such systems.
Parameter estimation of social forces in pedestrian dynamics models via a probabilistic method.
Corbetta, Alessandro; Muntean, Adrian; Vafayi, Kiamars
2015-04-01
Focusing on a specific crowd dynamics situation, including real life experiments and measurements, our paper targets a twofold aim: (1) we present a Bayesian probabilistic method to estimate the value and the uncertainty (in the form of a probability density function) of parameters in crowd dynamic models from the experimental data; and (2) we introduce a fitness measure for the models to classify a couple of model structures (forces) according to their fitness to the experimental data, preparing the stage for a more general model-selection and validation strategy inspired by probabilistic data analysis. Finally, we review the essential aspects of our experimental setup and measurement technique.
Non-Synchronous Whirling Due to Fluid-Dynamic Forces in Axial Turbo-Machinery Rotors
NASA Technical Reports Server (NTRS)
Shen, S. F.; Mengle, V. G.
1980-01-01
The role of fluid forces acting on the blades of an axial turborotor with regards to whirling was analyzed. The dynamic equations were formulated for the coning mode of an overhung rotor. The exciting forces due to the motion were defined through a set of rotor stability derivatives, and analytical expressions of the aerodynamic contributions were found for the case of small mean stream deflection, high solidity and equivalent flat plate cascade. For a typical case, only backward whirl was indicated when the phase shifting of the rotor wake effect was ignored. A parametric study of the dynamic stability boundary reveals that a reduction in blade stagger angle, mass flow rate, fluid density and an increase in stiffness and external damping are all inductive for improved stability.
Specific external forcing of spatiotemporal dynamics in reaction-diffusion systems.
Lebiedz, Dirk; Brandt-Pollmann, Ulrich
2005-06-01
Self-organization behavior and in particular pattern forming spatiotemporal dynamics play an important role in far from equilibrium chemical and biochemical systems. Specific external forcing and control of self-organizing processes might be of great benefit in various applications ranging from technical systems to modern biomedical research. We demonstrate that in a cellular chemotaxis system modeled by one-dimensional reaction-diffusion equations particular forms of spatiotemporal dynamics can be induced and stabilized by controlling spatially distributed influx patterns of a chemical species as a function of time. In our model study we show that a propagating wave with certain shape and velocity and static symmetrical and asymmetrical patterns can be forced and manipulated by numerically computing open-loop optimal influx controls.
Dynamical relations for left ventricular ejection - Flow rate, momentum, force and impulse
NASA Technical Reports Server (NTRS)
Back, L. H.; Selzer, R. H.; Gordon, D. G.; Ledbetter, D. C.; Crawford, D. W.
1984-01-01
An investigation was carried out to quantitatively evaluate left ventricular volume flow rate, momentum, force and impulse derived from application of conservation principles for mass and momentum of blood within the ventricle during the ejection phase. An automated digital image processing system was developed and applied to left ventricular angiograms which are computer processed and analyzed frame by frame to determine the dynamical relations by numerical methods. The initial experience with force and impulse has indicated that neither quantity seemed to be a sensitive indicator of coronary artery disease as evaluated by qualitative angiography for the particular patient group studied. Utilization of the dynamical relations in evaluating human left ventricular performance requires improved means of measurement and interpretation of clinical studies.
Image contrast mechanisms in dynamic friction force microscopy: Antimony particles on graphite
NASA Astrophysics Data System (ADS)
Mertens, Felix; Göddenhenrich, Thomas; Dietzel, Dirk; Schirmeisen, Andre
2017-01-01
Dynamic Friction Force Microscopy (DFFM) is a technique based on Atomic Force Microscopy (AFM) where resonance oscillations of the cantilever are excited by lateral actuation of the sample. During this process, the AFM tip in contact with the sample undergoes a complex movement which consists of alternating periods of sticking and sliding. Therefore, DFFM can give access to dynamic transition effects in friction that are not accessible by alternative techniques. Using antimony nanoparticles on graphite as a model system, we analyzed how combined influences of friction and topography can effect different experimental configurations of DFFM. Based on the experimental results, for example, contrast inversion between fractional resonance and band excitation imaging strategies to extract reliable tribological information from DFFM images are devised.
Variability and trends in dynamical forcing of tropical lower stratospheric temperatures
NASA Astrophysics Data System (ADS)
Fueglistaler, S.; Abalos, M.; Flannaghan, T. J.; Lin, P.; Randel, W. J.
2014-05-01
We analyse the relation between tropical lower stratospheric temperatures and dynamical forcing over the period 1980-2011 using NCEP, MERRA and ERA-Interim reanalyses. The tropical mean thermodynamic energy equation with Newtonian cooling for radiation is forced with two dynamical predictors: (i) the average eddy heat flux of both hemispheres; and (ii) tropical upwelling estimated from momentum balance following Randel et al. (2002). The correlation (1995-2011) for deseasonalised tropical average temperatures at 70 hPa with the eddy heat flux based predictor is 0.84 for ERA-Interim (0.77 for the momentum balance calculation), and 0.87 for MERRA. The eddy heat flux based predictor indicates a dynamically forced cooling of the tropics of ∼-0.1 K decade
Tartakovsky, Alexandre M.; Panchenko, Alexander
2016-01-01
We present a novel formulation of the Pairwise Force Smoothed Particle Hydrodynamics Model (PF-SPH) and use it to simulate two- and three-phase flows in bounded domains. In the PF-SPH model, the Navier-Stokes equations are discretized with the Smoothed Particle Hydrodynamics (SPH) method and the Young-Laplace boundary condition at the fluid-fluid interface and the Young boundary condition at the fluid-fluid-solid interface are replaced with pairwise forces added into the Navier-Stokes equations. We derive a relationship between the parameters in the pairwise forces and the surface tension and static contact angle. Next, we demonstrate the accuracy of the model under static and dynamic conditions. Finally, to demonstrate the capabilities and robustness of the model we use it to simulate flow of three fluids in a porous material.
Wu, Stephen; Angelikopoulos, Panagiotis; Tauriello, Gerardo; Papadimitriou, Costas; Koumoutsakos, Petros
2016-12-28
We propose a hierarchical Bayesian framework to systematically integrate heterogeneous data for the calibration of force fields in Molecular Dynamics (MD) simulations. Our approach enables the fusion of diverse experimental data sets of the physico-chemical properties of a system at different thermodynamic conditions. We demonstrate the value of this framework for the robust calibration of MD force-fields for water using experimental data of its diffusivity, radial distribution function, and density. In order to address the high computational cost associated with the hierarchical Bayesian models, we develop a novel surrogate model based on the empirical interpolation method. Further computational savings are achieved by implementing a highly parallel transitional Markov chain Monte Carlo technique. The present method bypasses possible subjective weightings of the experimental data in identifying MD force-field parameters.
Nonlinear dynamics of a rack-pinion-rack device powered by the Casimir force.
Miri, MirFaez; Nekouie, Vahid; Golestanian, Ramin
2010-01-01
Using the lateral Casimir force-a manifestation of the quantum fluctuations of the electromagnetic field between objects with corrugated surfaces-as the main force transduction mechanism, a nanomechanical device with rich dynamical behaviors is proposed. The device is made of two parallel racks that are moving in the same direction and a pinion in the middle that couples with both racks via the noncontact lateral Casimir force. The built-in frustration in the device causes it to be very sensitive and react dramatically to minute changes in the geometrical parameters and initial conditions of the system. The noncontact nature of the proposed device could help with the ubiquitous wear problem in nanoscale mechanical systems.
NASA Astrophysics Data System (ADS)
Tartakovsky, Alexandre M.; Panchenko, Alexander
2016-01-01
We present a novel formulation of the Pairwise Force Smoothed Particle Hydrodynamics (PF-SPH) model and use it to simulate two- and three-phase flows in bounded domains. In the PF-SPH model, the Navier-Stokes equations are discretized with the Smoothed Particle Hydrodynamics (SPH) method, and the Young-Laplace boundary condition at the fluid-fluid interface and the Young boundary condition at the fluid-fluid-solid interface are replaced with pairwise forces added into the Navier-Stokes equations. We derive a relationship between the parameters in the pairwise forces and the surface tension and static contact angle. Next, we demonstrate the model's accuracy under static and dynamic conditions. Finally, we use the Pf-SPH model to simulate three phase flow in a porous medium.
2010-06-11
recently visited three PRTs in Afghanistan: Panshir (US led), Bamiyan (New Zealand defense forces) and Mazar e Sharif (Sweden). She says that each PRT has...opportunity to visit and work with PRTs Bamiyan (led by New Zealand Defense Forces), Mazar e Sharif (Swedish Forces) and Herat (Italian Forces). During...relationships and the deficiencies at PRT level were really based, she says, upon the different environments in which the PRTs operated. She did find Bamiyan
Reconstruction of neuronal input through modeling single-neuron dynamics and computations
NASA Astrophysics Data System (ADS)
Qin, Qing; Wang, Jiang; Yu, Haitao; Deng, Bin; Chan, Wai-lok
2016-06-01
Mathematical models provide a mathematical description of neuron activity, which can better understand and quantify neural computations and corresponding biophysical mechanisms evoked by stimulus. In this paper, based on the output spike train evoked by the acupuncture mechanical stimulus, we present two different levels of models to describe the input-output system to achieve the reconstruction of neuronal input. The reconstruction process is divided into two steps: First, considering the neuronal spiking event as a Gamma stochastic process. The scale parameter and the shape parameter of Gamma process are, respectively, defined as two spiking characteristics, which are estimated by a state-space method. Then, leaky integrate-and-fire (LIF) model is used to mimic the response system and the estimated spiking characteristics are transformed into two temporal input parameters of LIF model, through two conversion formulas. We test this reconstruction method by three different groups of simulation data. All three groups of estimates reconstruct input parameters with fairly high accuracy. We then use this reconstruction method to estimate the non-measurable acupuncture input parameters. Results show that under three different frequencies of acupuncture stimulus conditions, estimated input parameters have an obvious difference. The higher the frequency of the acupuncture stimulus is, the higher the accuracy of reconstruction is.
Kim, Kyungsang; Son, Young Don; Bresler, Yoram; Cho, Zang Hee; Ra, Jong Beom; Ye, Jong Chul
2015-03-07
Dynamic positron emission tomography (PET) is widely used to measure changes in the bio-distribution of radiopharmaceuticals within particular organs of interest over time. However, to retain sufficient temporal resolution, the number of photon counts in each time frame must be limited. Therefore, conventional reconstruction algorithms such as the ordered subset expectation maximization (OSEM) produce noisy reconstruction images, thus degrading the quality of the extracted time activity curves (TACs). To address this issue, many advanced reconstruction algorithms have been developed using various spatio-temporal regularizations. In this paper, we extend earlier results and develop a novel temporal regularization, which exploits the self-similarity of patches that are collected in dynamic images. The main contribution of this paper is to demonstrate that the correlation of patches can be exploited using a low-rank constraint that is insensitive to global intensity variations. The resulting optimization framework is, however, non-Lipschitz and nonconvex due to the Poisson log-likelihood and low-rank penalty terms. Direct application of the conventional Poisson image deconvolution by an augmented Lagrangian (PIDAL) algorithm is, however, problematic due to its large memory requirements, which prevents its parallelization. Thus, we propose a novel optimization framework using the concave-convex procedure (CCCP)
Taylor, D E; Strawhecker, K E; Shanholtz, E R; Sorescu, D C; Sausa, R C
2014-07-10
The development of novel nanoenergetic materials with enhanced bulk properties requires an understanding of the intermolecular interactions occurring between molecular components. We investigate the surface interactions between 1,3,5-trinitro-1,3,5-triazacyclohexane (RDX) and polyethylene (PE) crystals on the basis of combined use of molecular dynamics (MD) simulations and force-distance spectroscopy, in conjunction with Lifshitz macroscopic theory of van der Waals forces between continuous materials. The binding energy in the RDX-PE system depends both on the degree of PE crystallinity and on the RDX crystal face. Our MD simulations yield binding energies of approximately 132 and 120 mJ/m(2) for 100% amorphous and 100% crystalline PE on RDX (210), respectively. The average value is about 36% greater than our experimental value of 81 ± 15 mJ/m(2) for PE (∼48% amorphous) on RDX (210). By comparison, Liftshitz theory predicts a value of about 79 mJ/m(2) for PE interacting with RDX. Our MD simulations also predict larger binding energies for both amorphous and crystalline PE on RDX (210) compared to the RDX (001) surface. Analysis of the interaction potential indicates that about 60% of the binding energy in the PE-RDX system is due to attractive interactions between HPE-ORDX and CPE-NRDX pairs of atoms. Further, amorphous PE shows a much longer interaction distance than crystalline PE with the (210) and (001) RDX surfaces due to the possibility of larger polymer elongations in the case of amorphous PE as strain is applied. Also, we report estimates of the binding energies of energetic materials RDX and octahydro-1,3,5,7-tetranitro-1,3,5,7-tetrazocine (HMX) with PE, propylene, polystyrene, and several fluorine-containing polymers using Lifshitz theory and compare these with reported MD calculations.
Dynamic nanoindentation by instrumented nanoindentation and force microscopy: a comparative review
Kalfon-Cohen, Estelle
2013-01-01
Summary Viscoelasticity is a complex yet important phenomenon that drives material response at different scales of time and space. Burgeoning interest in nanoscale dynamic material mechanics has driven, and been driven by two key techniques: instrumented nanoindentation and atomic force microscopy. This review provides an overview of fundamental principles in nanoindentation, and compares and contrasts these two techniques as they are used for characterization of viscoelastic processes at the nanoscale. PMID:24367751
NASA Technical Reports Server (NTRS)
Mcalister, K. W.; Pucci, S. L.; Mccroskey, W. J.; Carr, L. W.
1982-01-01
Experimentally derived force and moment data are presented for eight airfoil sections that were tested at fixed and varying incidence in a subsonic two dimensional stream. Airfoil incidence was varied through sinusoidal oscillations in pitch over a wide range of amplitude and frequency. The surface pressure distribution, as well as the lift, drag, and pitching moment derived therefrom, are displayed in a uniform fashion to delineate the static and dynamic characteristics of each airfoil both in and out of stall.
2015-09-23
Round Robin Propellant Testing for Development of AOP-4717 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S...area code) N/A Standard Form 298 (Rev. 8-98) Prescribed by ANSI Std. 239.18 0 Air Force Dynamic Mechanical Analysis of NATO Round Robin ...the clamps are tight at the coldest temperature. • Long tests such as the frequency sweep sequences prescribed in this round robin may be
Role of radiation reaction forces in the dynamics of centrifugally accelerated particles
Dalakishvili, G. T.; Rogava, A. D.; Berezhiani, V. I.
2007-08-15
In this paper we study the influence of radiation reaction (RR) forces on the dynamics of centrifugally accelerated particles. It is assumed that the particles move along magnetic field lines anchored in the rotating central object. The common 'bead-on-the-wire' approximation is used. The solutions are found and analyzed for cases when the form of the prescribed trajectory (rigidly rotating field line) is approximated by: (a) straight line, and (b) Archimedes spiral. Dynamics of neutral and charged particles are compared with the emphasis on the role of RR forces in the latter case. It is shown that for charged particles there exist locations of stable equilibrium. It is demonstrated that for particular initial conditions RR forces cause centripetal motion of the particles: their 'falling' on the central rotating object. It is found that in the case of Archimedes spiral both neutral and charged particles can reach infinity where their motion has asymptotically force-free character. The possible importance of these processes for the acceleration of relativistic, charged particles by rotating magnetospheres in the context of the generation of nonthermal, high-energy emission of AGN and pulsars is discussed.
Force and torque on spherical particles in micro-channel flows using computational fluid dynamics.
Suo, Jin; Edwards, Erin E; Anilkumar, Ananyaveena; Sulchek, Todd; Giddens, Don P; Thomas, Susan N
2016-07-01
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.
Force and torque on spherical particles in micro-channel flows using computational fluid dynamics
Suo, Jin; Edwards, Erin E.; Anilkumar, Ananyaveena; Sulchek, Todd; Giddens, Don P.
2016-01-01
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. PMID:27493783
Lindert, Steffen; Bucher, Denis; Eastman, Peter; Pande, Vijay; McCammon, J Andrew
2013-11-12
The accelerated molecular dynamics (aMD) method has recently been shown to enhance the sampling of biomolecules in molecular dynamics (MD) simulations, often by several orders of magnitude. Here, we describe an implementation of the aMD method for the OpenMM application layer that takes full advantage of graphics processing units (GPUs) computing. The aMD method is shown to work in combination with the AMOEBA polarizable force field (AMOEBA-aMD), allowing the simulation of long time-scale events with a polarizable force field. Benchmarks are provided to show that the AMOEBA-aMD method is efficiently implemented and produces accurate results in its standard parametrization. For the BPTI protein, we demonstrate that the protein structure described with AMOEBA remains stable even on the extended time scales accessed at high levels of accelerations. For the DNA repair metalloenzyme endonuclease IV, we show that the use of the AMOEBA force field is a significant improvement over fixed charged models for describing the enzyme active-site. The new AMOEBA-aMD method is publicly available (http://wiki.simtk.org/openmm/VirtualRepository) and promises to be interesting for studying complex systems that can benefit from both the use of a polarizable force field and enhanced sampling.
Assessment of dynamic finger forces in pianists: effects of training and expertise.
Parlitz, D; Peschel, T; Altenmüller, E
1998-11-01
Playing a musical instrument requires complex sensorimotor programming of hand and finger movements. During musical training motor programs are optimized to achieve highest accuracy with a minimum of effort. In the lack of handy measurement tools these rational assumptions of piano theorists did not undergo an experimental evaluation up to now. In the present pilot study we used a dynamic pressure measurement system with the pianoforte. Three finger exercises with increasing degrees of difficulty had to be performed by a group of musical amateurs and a group of expert players. From the dynamic force measurements we calculated (a) the mean pulse per touch and (b) the mean touch-duration for each exercise and each subject. To achieve the same tempo and the same loudness, amateurs applied significantly more and longer force to the keys, leading to higher mean pulses per touch. Pulse and duration values increased with higher demands on finger coordination in both, expert pianists and amateurs. The results show that dynamic force measurement systems can support music learners and teachers in training a relaxed piano technique and preventing musicians from overuse injuries.
Energetic dynamics of a rotating horizontal convection model of an ocean basin with wind forcing
NASA Astrophysics Data System (ADS)
Zemskova, Varvara; White, Brian; Scotti, Alberto
2016-11-01
We analyze the energetic dynamics in a rotating horizontal convection model, where flow is driven by a differential buoyancy forcing along a horizontal surface. This model is used to quantify the influence of surface heating and cooling and surface wind stress on the Meridional Overturning Circulation. We study a model of the Southern Ocean in a rectangular basin with surface cooling on one end (the South pole) and surface warming on the other end (mid-latitudes). Free-slip boundary conditions are imposed in the closed box, while zonally periodic boundary conditions are enforced in the reentrant channel. Wind stress and differential buoyancy forcing are applied at the top boundary. The problem is solved numerically using a 3D DNS model based on a finite-volume AMR solver for the Boussinesq Navier-Stokes equations with rotation. The overall dynamics, including large-scale overturning, baroclinic eddying, turbulent mixing, and resulting energy cascades are investigated using the local Available Potential Energy framework introduced in. We study the relative contributions of surface buoyancy and wind forcing along with the effects of bottom topography to the energetic balance of this dynamic model. This research is part of the Blue Waters sustained-petascale computing project, supported by the NSF (awards OCI-0725070, ACI-1238993 and ACI-14-44747) and the state of Illinois.
Binaries Traveling through a Gaseous Medium: Dynamical Drag Forces and Internal Torques
NASA Astrophysics Data System (ADS)
Sánchez-Salcedo, F. J.; Chametla, Raul O.
2014-10-01
Using time-dependent linear theory, we investigate the morphology of the gravitational wake induced by a binary, whose center of mass moves at velocity {\\boldsymbol {V}}_cm against a uniform background of gas. For simplicity, we assume that the components of the binary are on circular orbits about their common center of mass. The consequences of dynamical friction is twofold. First, gas dynamical friction may drag the center of mass of the binary and cause the binary to migrate. Second, drag forces also induce a braking torque, which causes the orbits of the components of the binary to shrink. We compute the drag forces acting on one component of the binary due to the gravitational interaction with its own wake. We show that the dynamical friction force responsible for decelerating the center of mass of the binary is smaller than it is in the point-mass case because of the loss of gravitational focusing. We show that the braking internal torque depends on the Mach numbers of each binary component about their center of mass, and also on the Mach number of the center of mass of the binary. In general, the internal torque decreases with increasing the velocity of the binary relative to the ambient gas cloud. However, this is not always the case. We also mention the relevance of our results to the period distribution of binaries.
Mapping the Protein Fold Universe Using the CamTube Force Field in Molecular Dynamics Simulations.
Kukic, Predrag; Kannan, Arvind; Dijkstra, Maurits J J; Abeln, Sanne; Camilloni, Carlo; Vendruscolo, Michele
2015-10-01
It has been recently shown that the coarse-graining of the structures of polypeptide chains as self-avoiding tubes can provide an effective representation of the conformational space of proteins. In order to fully exploit the opportunities offered by such a 'tube model' approach, we present here a strategy to combine it with molecular dynamics simulations. This strategy is based on the incorporation of the 'CamTube' force field into the Gromacs molecular dynamics package. By considering the case of a 60-residue polyvaline chain, we show that CamTube molecular dynamics simulations can comprehensively explore the conformational space of proteins. We obtain this result by a 20 μs metadynamics simulation of the polyvaline chain that recapitulates the currently known protein fold universe. We further show that, if residue-specific interaction potentials are added to the CamTube force field, it is possible to fold a protein into a topology close to that of its native state. These results illustrate how the CamTube force field can be used to explore efficiently the universe of protein folds with good accuracy and very limited computational cost.
Binaries traveling through a gaseous medium: dynamical drag forces and internal torques
Sánchez-Salcedo, F. J.; Chametla, Raul O.
2014-10-20
Using time-dependent linear theory, we investigate the morphology of the gravitational wake induced by a binary, whose center of mass moves at velocity V{sub cm} against a uniform background of gas. For simplicity, we assume that the components of the binary are on circular orbits about their common center of mass. The consequences of dynamical friction is twofold. First, gas dynamical friction may drag the center of mass of the binary and cause the binary to migrate. Second, drag forces also induce a braking torque, which causes the orbits of the components of the binary to shrink. We compute the drag forces acting on one component of the binary due to the gravitational interaction with its own wake. We show that the dynamical friction force responsible for decelerating the center of mass of the binary is smaller than it is in the point-mass case because of the loss of gravitational focusing. We show that the braking internal torque depends on the Mach numbers of each binary component about their center of mass, and also on the Mach number of the center of mass of the binary. In general, the internal torque decreases with increasing the velocity of the binary relative to the ambient gas cloud. However, this is not always the case. We also mention the relevance of our results to the period distribution of binaries.
NASA Astrophysics Data System (ADS)
Craco, L.; Faria, J. L. B.; Leoni, S.
2017-03-01
We present a detailed study of correlation- and pressure-induced electronic reconstruction in hexagonal iron monosulfide, a system which is widely found in meteorites and one of the components of Earth’s core. Based on a perusal of experimental data, we stress the importance of multi-orbital electron-electron interactions in concert with first-principles band structure calculations for a consistent understanding of its intrinsic Mott–Hubbard insulating state. We explain the anomalous nature of pressure-induced insulator-metal-insulator transition seen in experiment, showing that it is driven by dynamical spectral weight transfer in response to changes in the crystal-field splittings under pressure. As a byproduct of this analysis, we confirm that the electronic transitions observed in pristine FeS at moderated pressures are triggered by changes in the spin state which causes orbital-selective Kondo quasiparticle electronic reconstruction at low energies.
Balyan, Minas K
2014-01-01
A numerical method of reconstruction of an object image using an X-ray dynamical diffraction Fraunhofer hologram is presented. Analytical approximation methods and numerical methods of iteration are discussed. An example of a reconstruction of an image of a cylindrical beryllium wire is considered. The results of analytical approximation and zero-order iteration coincide with exact values of the amplitude complex transmission coefficient of the object as predicted by the resolution limit of the scheme, except near the edges of the object. Calculations of the first- and second-order iterations improve the result at the edges of the object. This method can be applied for determination of the complex amplitude transmission coefficient of amplitude as well as phase objects. It can be used in X-ray microscopy.
Calò, Annalisa; Robles, Oriol Vidal; Santos, Sergio
2015-01-01
Summary There has been much interest in the past two decades to produce experimental force profiles characteristic of the interaction between nanoscale objects or a nanoscale object and a plane. Arguably, the advent of the atomic force microscope AFM was instrumental in driving such efforts because, in principle, force profiles could be recovered directly. Nevertheless, it has taken years before techniques have developed enough as to recover the attractive part of the force with relatively low noise and without missing information on critical ranges, particularly under ambient conditions where capillary interactions are believed to dominate. Thus a systematic study of the different profiles that may arise in such situations is still lacking. Here we employ the surfaces of CaF2, on which nanoscale water films form, to report on the range and force profiles that might originate by dynamic capillary interactions occurring between an AFM tip and nanoscale water patches. Three types of force profiles were observed under ambient conditions. One in which the force decay resembles the well-known inverse-square law typical of van der Waals interactions during the first 0.5–1 nm of decay, a second one in which the force decays almost linearly, in relatively good agreement with capillary force predicted by the constant chemical potential approximation, and a third one in which the attractive force is almost constant, i.e., forms a plateau, up to 3–4 nm above the surface when the formation of a capillary neck dominates the tip–sample interaction. PMID:25977852
Kim, Sungheon G.; Feng, Li; Grimm, Robert; Freed, Melanie; Block, Kai Tobias; Sodickson, Daniel K.; Moy, Linda; Otazo, Ricardo
2015-01-01
Objective To evaluate the influence of temporal sparsity regularization and radial undersampling on compressed sensing reconstruction of dynamic contrast-enhanced (DCE) MRI, using the iterative Golden-angle RAdial Sparse Parallel (iGRASP) MRI technique in the setting of breast cancer evaluation. Method DCE-MRI examinations of the breast (n=7) were conducted using iGRASP at 3T. Images were reconstructed with five different radial undersampling schemes corresponding to temporal resolutions between 2 and 13.4 s/frame and with four different weights for temporal sparsity regularization (λ=0.1, 0.5, 2, and 6 times of noise level). Image similarity to time-averaged reference images was assessed by two breast radiologists and using quantitative metrics. Temporal similarity was measured in terms of wash-in slope and contrast kinetic model parameters. Results iGRASP images reconstructed with λ=2 and 5.1s/frame had significantly (p<0.05) higher similarity to time-averaged reference images than the images with other reconstruction parameters (mutual information (MI) >5%), in agreement with the assessment of two breast radiologists. Higher undersampling (temporal resolution < 5.1 s/frame) required stronger temporal sparsity regularization (λ≥2) to remove streaking aliasing artifacts (MI>23% between λ=2 and 0.5). The difference between the kinetic-model transfer rates of benign and malignant groups decreased as temporal resolution decreased (82% between 2 and 13.4s/frame). Conclusion This study demonstrates objective spatial and temporal similarity measures can be used to assess the influence of sparsity constraint and undersampling in compressed sensing DCE-MRI and also shows that the iGRASP method provides the flexibility of optimizing these reconstruction parameters in the post-processing stage using the same acquired data. PMID:26032976
NASA Astrophysics Data System (ADS)
Moradi, Hamed; Vossoughi, Gholamreza; Movahhedy, Mohammad R.
2013-09-01
In this paper, an extended dynamic model of peripheral milling process including process damping, structural and cutting force nonlinearities is presented. Cutting forces are described through a third-order polynomial function of chip thickness while a cubic nonlinear function is considered for the structural stiffness. Under stable and regenerative chatter conditions and using Fourier series components, closed form expressions for the nonlinear cutting forces are derived. Parameters of the proposed model are identified through a set of experiments. For this purpose, modal experiments and measurement of cutting forces (at various feed rates) are performed to determine the modal parameters and the coefficients of nonlinear cutting force model. In addition, coefficients of the structural stiffness and process damping are identified through the analysis of experimental and simulated stability lobes diagrams. Simulated stability lobes diagram is constructed based on two approaches: a trial and error (TE) based algorithm and semi-discretization method (SDM). The presented experimental method for model identification can be implemented on any industrial milling process.
Whole-Body Human Inverse Dynamics with Distributed Micro-Accelerometers, Gyros and Force Sensing †
Latella, Claudia; Kuppuswamy, Naveen; Romano, Francesco; Traversaro, Silvio; Nori, Francesco
2016-01-01
Human motion tracking is a powerful tool used in a large range of applications that require human movement analysis. Although it is a well-established technique, its main limitation is the lack of estimation of real-time kinetics information such as forces and torques during the motion capture. In this paper, we present a novel approach for a human soft wearable force tracking for the simultaneous estimation of whole-body forces along with the motion. The early stage of our framework encompasses traditional passive marker based methods, inertial and contact force sensor modalities and harnesses a probabilistic computational technique for estimating dynamic quantities, originally proposed in the domain of humanoid robot control. We present experimental analysis on subjects performing a two degrees-of-freedom bowing task, and we estimate the motion and kinetics quantities. The results demonstrate the validity of the proposed method. We discuss the possible use of this technique in the design of a novel soft wearable force tracking device and its potential applications. PMID:27213394
Opening mechanism of adenylate kinase can vary according to selected molecular dynamics force field.
Unan, Hulya; Yildirim, Ahmet; Tekpinar, Mustafa
2015-07-01
Adenylate kinase is a widely used test case for many conformational transition studies. It performs a large conformational transition between closed and open conformations while performing its catalytic function. To understand conformational transition mechanism and impact of force field choice on E. Coli adenylate kinase, we performed all-atom explicit solvent classical molecular dynamics simulations starting from the closed conformation with four commonly used force fields, namely, Amber99, Charmm27, Gromos53a6, Opls-aa. We carried out 40 simulations, each one 200 ns. We analyzed completely 12 of them that show full conformational transition from the closed state to the open one. Our study shows that different force fields can have a bias toward different transition pathways. Transition time scales, frequency of conformational transitions, order of domain motions and free energy landscapes of each force field may also vary. In general, Amber99 and Charmm27 behave similarly while Gromos53a6 results have a resemblance to the Opls-aa force field results.
Paramfit: automated optimization of force field parameters for molecular dynamics simulations.
Betz, Robin M; Walker, Ross C
2015-01-15
The generation of bond, angle, and torsion parameters for classical molecular dynamics force fields typically requires fitting parameters such that classical properties such as energies and gradients match precalculated quantum data for structures that scan the value of interest. We present a program, Paramfit, distributed as part of the AmberTools software package that automates and extends this fitting process, allowing for simplified parameter generation for applications ranging from single molecules to entire force fields. Paramfit implements a novel combination of a genetic and simplex algorithm to find the optimal set of parameters that replicate either quantum energy or force data. The program allows for the derivation of multiple parameters simultaneously using significantly fewer quantum calculations than previous methods, and can also fit parameters across multiple molecules with applications to force field development. Paramfit has been applied successfully to systems with a sparse number of structures, and has already proven crucial in the development of the Assisted Model Building with Energy Refinement Lipid14 force field.
Direct Measurement of Optical Force Induced by Near-Field Plasmonic Cavity Using Dynamic Mode AFM
Guan, Dongshi; Hang, Zhi Hong; Marcet, Zsolt; Liu, Hui; Kravchenko, I. I.; Chan, C. T.; Chan, H. B.; Tong, Penger
2015-01-01
Plasmonic nanostructures have attracted much attention in recent years because of their potential applications in optical manipulation through near-field enhancement. Continuing experimental efforts have been made to develop accurate techniques to directly measure the near-field optical force induced by the plasmonic nanostructures in the visible frequency range. In this work, we report a new application of dynamic mode atomic force microscopy (DM-AFM) in the measurement of the enhanced optical force acting on a nano-structured plasmonic resonant cavity. The plasmonic cavity is made of an upper gold-coated glass sphere and a lower quartz substrate patterned with an array of subwavelength gold disks. In the near-field when the sphere is positioned close to the disk array, plasmonic resonance is excited in the cavity and the induced force by a 1550 nm infrared laser is found to be increased by an order of magnitude compared with the photon pressure generated by the same laser light. The experiment demonstrates that DM-AFM is a powerful tool for the study of light induced forces and their enhancement in plasmonic nanostructures. PMID:26586455
Whole-Body Human Inverse Dynamics with Distributed Micro-Accelerometers, Gyros and Force Sensing.
Latella, Claudia; Kuppuswamy, Naveen; Romano, Francesco; Traversaro, Silvio; Nori, Francesco
2016-05-20
Human motion tracking is a powerful tool used in a large range of applications that require human movement analysis. Although it is a well-established technique, its main limitation is the lack of estimation of real-time kinetics information such as forces and torques during the motion capture. In this paper, we present a novel approach for a human soft wearable force tracking for the simultaneous estimation of whole-body forces along with the motion. The early stage of our framework encompasses traditional passive marker based methods, inertial and contact force sensor modalities and harnesses a probabilistic computational technique for estimating dynamic quantities, originally proposed in the domain of humanoid robot control. We present experimental analysis on subjects performing a two degrees-of-freedom bowing task, and we estimate the motion and kinetics quantities. The results demonstrate the validity of the proposed method. We discuss the possible use of this technique in the design of a novel soft wearable force tracking device and its potential applications.
Direct measurement of optical force induced by near-field plasmonic cavity using dynamic mode AFM
Guan, Dongshi; Hang, Zhi Hong; Marset, Zsolt; ...
2015-11-20
Plasmonic nanostructures have attracted much attention in recent years because of their potential applications in optical manipulation through near-field enhancement. Continuing experimental efforts have been made to develop accurate techniques to directly measure the near-field optical force induced by the plasmonic nanostructures in the visible frequency range. In this work, we report a new application of dynamic mode atomic force microscopy (DM-AFM) in the measurement of the enhanced optical force acting on a nano-structured plasmonic resonant cavity. The plasmonic cavity is made of an upper gold-coated glass sphere and a lower quartz substrate patterned with an array of subwavelength goldmore » disks. In the near-field when the sphere is positioned close to the disk array, plasmonic resonance is excited in the cavity and the induced force by a 1550 nm infrared laser is found to be increased by an order of magnitude compared with the photon pressure generated by the same laser light. Lastly, the experiment demonstrates that DM-AFM is a powerful tool for the study of light induced forces and their enhancement in plasmonic nanostructures.« less
Balke, Nina; Jesse, Stephen; Yu, Pu; Carmichael, Ben; Kalinin, Sergei V.; Tselev, Alexander
2016-09-15
Detection of dynamic surface displacements associated with local changes in material strain provides access to a number of phenomena and material properties. Contact resonance-enhanced methods of atomic force microscopy (AFM) have been shown capable of detecting ~1–3 pm-level surface displacements, an approach used in techniques such as piezoresponse force microscopy, atomic force acoustic microscopy, and ultrasonic force microscopy. Here, based on an analytical model of AFM cantilever vibrations, we demonstrate a guideline to quantify surface displacements with high accuracy by taking into account the cantilever shape at the first resonant contact mode, depending on the tip–sample contact stiffness. The approach has been experimentally verified and further developed for piezoresponse force microscopy (PFM) using well-defined ferroelectric materials. These results open up a way to accurate and precise measurements of surface displacement as well as piezoelectric constants at the pm-scale with nanometer spatial resolution and will allow avoiding erroneous data interpretations and measurement artifacts. Furthermore, this analysis is directly applicable to all cantilever-resonance-based scanning probe microscopy (SPM) techniques.
Balke, Nina; Jesse, Stephen; Yu, Pu; ...
2016-09-15
Detection of dynamic surface displacements associated with local changes in material strain provides access to a number of phenomena and material properties. Contact resonance-enhanced methods of atomic force microscopy (AFM) have been shown capable of detecting ~1–3 pm-level surface displacements, an approach used in techniques such as piezoresponse force microscopy, atomic force acoustic microscopy, and ultrasonic force microscopy. Here, based on an analytical model of AFM cantilever vibrations, we demonstrate a guideline to quantify surface displacements with high accuracy by taking into account the cantilever shape at the first resonant contact mode, depending on the tip–sample contact stiffness. The approachmore » has been experimentally verified and further developed for piezoresponse force microscopy (PFM) using well-defined ferroelectric materials. These results open up a way to accurate and precise measurements of surface displacement as well as piezoelectric constants at the pm-scale with nanometer spatial resolution and will allow avoiding erroneous data interpretations and measurement artifacts. Furthermore, this analysis is directly applicable to all cantilever-resonance-based scanning probe microscopy (SPM) techniques.« less
Direct measurement of optical force induced by near-field plasmonic cavity using dynamic mode AFM
Guan, Dongshi; Hang, Zhi Hong; Marset, Zsolt; Liu, Hui; Kravchenko, Ivan I.; Chan, Ho Bun; Chan, C. T.; Tong, Penger
2015-11-20
Plasmonic nanostructures have attracted much attention in recent years because of their potential applications in optical manipulation through near-field enhancement. Continuing experimental efforts have been made to develop accurate techniques to directly measure the near-field optical force induced by the plasmonic nanostructures in the visible frequency range. In this work, we report a new application of dynamic mode atomic force microscopy (DM-AFM) in the measurement of the enhanced optical force acting on a nano-structured plasmonic resonant cavity. The plasmonic cavity is made of an upper gold-coated glass sphere and a lower quartz substrate patterned with an array of subwavelength gold disks. In the near-field when the sphere is positioned close to the disk array, plasmonic resonance is excited in the cavity and the induced force by a 1550 nm infrared laser is found to be increased by an order of magnitude compared with the photon pressure generated by the same laser light. Lastly, the experiment demonstrates that DM-AFM is a powerful tool for the study of light induced forces and their enhancement in plasmonic nanostructures.
Opening mechanism of adenylate kinase can vary according to selected molecular dynamics force field
NASA Astrophysics Data System (ADS)
Unan, Hulya; Yildirim, Ahmet; Tekpinar, Mustafa
2015-07-01
Adenylate kinase is a widely used test case for many conformational transition studies. It performs a large conformational transition between closed and open conformations while performing its catalytic function. To understand conformational transition mechanism and impact of force field choice on E. Coli adenylate kinase, we performed all-atom explicit solvent classical molecular dynamics simulations starting from the closed conformation with four commonly used force fields, namely, Amber99, Charmm27, Gromos53a6, Opls-aa. We carried out 40 simulations, each one 200 ns. We analyzed completely 12 of them that show full conformational transition from the closed state to the open one. Our study shows that different force fields can have a bias toward different transition pathways. Transition time scales, frequency of conformational transitions, order of domain motions and free energy landscapes of each force field may also vary. In general, Amber99 and Charmm27 behave similarly while Gromos53a6 results have a resemblance to the Opls-aa force field results.
Stable force identification in structural dynamics using Kalman filtering and dummy-measurements
NASA Astrophysics Data System (ADS)
Naets, F.; Cuadrado, J.; Desmet, W.
2015-01-01
Many engineering applications require the knowledge of input forces to mechanical systems. However, in practice, it is quite difficult to measure these forces directly. In order to obtain an estimate of the input forces to structural systems, Kalman filtering based techniques have recently been introduced. These state-estimation techniques allow estimating the forces concurrent with the states of a system, based on a limited number of measurements. In practice, acceleration measurements are most convenient to use in structural dynamics applications. This paper proposes an analytical analysis of the stability of the Kalman based force estimation techniques and shows that only using acceleration measurements inherently leads to unreliable results. In order to circumvent this issue, the addition of dummy-measurements on a position level is proposed. These fictitious measurements dictate the estimator to return to an undeformed state and lead to a stable estimation approach. The proposed method is validated through both a numerical and a practical experiment. Both experiments show the inadequacy of the augmented Kalman filter based on only acceleration measurements to provide stable results. The estimator with dummy measurements on the other hand provides good results in the case of an unbiased external load.
NASA Astrophysics Data System (ADS)
Balke, Nina; Jesse, Stephen; Yu, Pu; Carmichael, Ben; Kalinin, Sergei V.; Tselev, Alexander
2016-10-01
Detection of dynamic surface displacements associated with local changes in material strain provides access to a number of phenomena and material properties. Contact resonance-enhanced methods of atomic force microscopy (AFM) have been shown capable of detecting ˜1-3 pm-level surface displacements, an approach used in techniques such as piezoresponse force microscopy, atomic force acoustic microscopy, and ultrasonic force microscopy. Here, based on an analytical model of AFM cantilever vibrations, we demonstrate a guideline to quantify surface displacements with high accuracy by taking into account the cantilever shape at the first resonant contact mode, depending on the tip-sample contact stiffness. The approach has been experimentally verified and further developed for piezoresponse force microscopy (PFM) using well-defined ferroelectric materials. These results open up a way to accurate and precise measurements of surface displacement as well as piezoelectric constants at the pm-scale with nanometer spatial resolution and will allow avoiding erroneous data interpretations and measurement artifacts. This analysis is directly applicable to all cantilever-resonance-based scanning probe microscopy (SPM) techniques.
NASA Astrophysics Data System (ADS)
Kim, Kyungsang; Son, Young Don; Bresler, Yoram; Cho, Zang Hee; Ra, Jong Beom; Ye, Jong Chul
2015-03-01
Dynamic positron emission tomography (PET) is widely used to measure changes in the bio-distribution of radiopharmaceuticals within particular organs of interest over time. However, to retain sufficient temporal resolution, the number of photon counts in each time frame must be limited. Therefore, conventional reconstruction algorithms such as the ordered subset expectation maximization (OSEM) produce noisy reconstruction images, thus degrading the quality of the extracted time activity curves (TACs). To address this issue, many advanced reconstruction algorithms have been developed using various spatio-temporal regularizations. In this paper, we extend earlier results and develop a novel temporal regularization, which exploits the self-similarity of patches that are collected in dynamic images. The main contribution of this paper is to demonstrate that the correlation of patches can be exploited using a low-rank constraint that is insensitive to global intensity variations. The resulting optimization framework is, however, non-Lipschitz and non-convex due to the Poisson log-likelihood and low-rank penalty terms. Direct application of the conventional Poisson image deconvolution by an augmented Lagrangian (PIDAL) algorithm is, however, problematic due to its large memory requirements, which prevents its parallelization. Thus, we propose a novel optimization framework using the concave-convex procedure (CCCP) by exploiting the Legendre-Fenchel transform, which is computationally efficient and parallelizable. In computer simulation and a real in vivo experiment using a high-resolution research tomograph (HRRT) scanner, we confirm that the proposed algorithm can improve image quality while also extracting more accurate region of interests (ROI) based kinetic parameters. Furthermore, we show that the total reconstruction time for HRRT PET is significantly accelerated using our GPU implementation, which makes the algorithm very practical in clinical environments.
A feasibility study for experimentally determining dynamic force distribution in a lap joint.
Mayes, Randall Lee
2013-11-01
Developing constitutive models of the physics in mechanical joints is currently stymied by inability to measure forces and displacements within the joint. The current state of the art estimates whole joint stiffness and energy loss per cycle from external measured force input and one or two acceleration responses. To validate constitutive models beyond this state requires a measurement of the distributed forces and displacements at the joint interface. Unfortunately, introducing measurement devices at the interface completely disrupts the desired physics. A feasibility study is presented for a non-intrusive method of solving for the interface dynamic forces from an inverse problem using full field measured responses. The responses come from the viewable surface of a beam. The noise levels associated with digital image correlation and continuous scanning laser Doppler velocimetry are evaluated from typical beam experiments. Two inverse problems are simulated. One utilizes the extended Sum of Weighted Accelerations Technique (SWAT). The second is a new approach dubbed the method of truncated orthogonal forces. These methods are much more robust if the contact patch geometry is well identified. Various approaches to identifying the contact patch are investigated, including ion marker tracking, Prussian blue and ultrasonic measurements. A typical experiment is conceived for a beam which has a lap joint at one end with a single bolt connecting it to another identical beam. In a virtual test using the beam finite element analysis, it appears that the SWAT inverse method requires evaluation of too many coefficients to adequately identify the force distribution to be viable. However, the method of truncated orthogonal forces appears viable with current digital image correlation (and probably other) imaging techniques.
ECM-modulated cellular dynamics as a driving force for tissue morphogenesis.
Daley, William P; Yamada, Kenneth M
2013-08-01
The extracellular matrix (ECM) plays diverse regulatory roles throughout development. Coordinate interactions between cells within a tissue and the ECM result in the dynamic remodeling of ECM structure. Both chemical signals and physical forces that result from such microenvironmental remodeling regulate cell behavior that sculpts tissue structure. Here, we review recent discoveries illustrating different ways in which ECM remodeling promotes dynamic cell behavior during tissue morphogenesis. We focus first on new insights that identify localized ECM signaling as a regulator of cell migration, shape, and adhesion during branching morphogenesis. We also review mechanisms by which the ECM and basement membrane can both sculpt and stabilize epithelial tissue structure, using as examples Drosophila egg chamber development and cleft formation in epithelial organs. Finally, we end with an overview of the dynamic mechanisms by which the ECM can regulate stem cell differentiation to contribute to proper tissue morphogenesis.
Vega, M J; Gouttière, C; Seveno, D; Blake, T D; Voué, M; De Coninck, J; Clarke, A
2007-10-09
Forced wetting experiments with various liquids were conducted to study the dynamic wetting properties of nylon filament. The molecular-kinetic theory of wetting (MKT) was used to interpret the dynamic contact angle data and evaluate the contact-line friction zeta0 at the microscopic scale. By taking account of the viscosity of the liquid, zeta0 could be related exponentially to the reversible work of adhesion. This clearly establishes an experimental link between the static and dynamic wetting properties of the material. Moreover, statistical analysis of the equilibrium molecular displacement frequency K0 and the length of the displacements lambda reveals that these two fundamental parameters of the MKT are strongly correlated, not only in the linearized form of the theory (valid close to equilibrium) but also when the nonlinear form of the equations has to be considered at higher wetting speeds.
Molecular dynamics force-field refinement against quasi-elastic neutron scattering data
Borreguero Calvo, Jose M.; Lynch, Vickie E.
2015-11-23
Quasi-elastic neutron scattering (QENS) is one of the experimental techniques of choice for probing the dynamics at length and time scales that are also in the realm of full-atom molecular dynamics (MD) simulations. This overlap enables extension of current fitting methods that use time-independent equilibrium measurements to new methods fitting against dynamics data. We present an algorithm that fits simulation-derived incoherent dynamical structure factors against QENS data probing the diffusive dynamics of the system. We showcase the difficulties inherent to this type of fitting problem, namely, the disparity between simulation and experiment environment, as well as limitations in the simulation due to incomplete sampling of phase space. We discuss a methodology to overcome these difficulties and apply it to a set of full-atom MD simulations for the purpose of refining the force-field parameter governing the activation energy of methyl rotation in the octa-methyl polyhedral oligomeric silsesquioxane molecule. Our optimal simulated activation energy agrees with the experimentally derived value up to a 5% difference, well within experimental error. We believe the method will find applicability to other types of diffusive motions and other representation of the systems such as coarse-grain models where empirical fitting is essential. In addition, the refinement method can be extended to the coherent dynamic structure factor with no additional effort.
Molecular dynamics force-field refinement against quasi-elastic neutron scattering data
Borreguero Calvo, Jose M.; Lynch, Vickie E.
2015-11-23
Quasi-elastic neutron scattering (QENS) is one of the experimental techniques of choice for probing the dynamics at length and time scales that are also in the realm of full-atom molecular dynamics (MD) simulations. This overlap enables extension of current fitting methods that use time-independent equilibrium measurements to new methods fitting against dynamics data. We present an algorithm that fits simulation-derived incoherent dynamical structure factors against QENS data probing the diffusive dynamics of the system. We showcase the difficulties inherent to this type of fitting problem, namely, the disparity between simulation and experiment environment, as well as limitations in the simulationmore » due to incomplete sampling of phase space. We discuss a methodology to overcome these difficulties and apply it to a set of full-atom MD simulations for the purpose of refining the force-field parameter governing the activation energy of methyl rotation in the octa-methyl polyhedral oligomeric silsesquioxane molecule. Our optimal simulated activation energy agrees with the experimentally derived value up to a 5% difference, well within experimental error. We believe the method will find applicability to other types of diffusive motions and other representation of the systems such as coarse-grain models where empirical fitting is essential. In addition, the refinement method can be extended to the coherent dynamic structure factor with no additional effort.« less
NASA Astrophysics Data System (ADS)
Cook, Sara Iliafar
T, respectively). In addition to the binding strength of ssDNA nucleotide to surfaces, it is equally as important to understand the dynamics of these interactions. The force response of a simple chain-like polymeric molecule (representative of single stranded DNA) was studied using Brownian dynamics to shed light on these dynamics and the features that may be masked in SMFS experiments. Through simulations at slow peeling rates, our Brownian dynamics model confirmed the predictions of an equilibrium statistical thermodynamic model. Faster removal rates resulted in deviations from equilibrium which were dominated by a combination of Stokes (viscous) drag and a finite desorption rate of the monomeric units. Furthermore, the force probe's thermal fluctuations were shown to be affected by the spring constant of the contact mode AFM cantilever Consequently, this effect provided evidence on the source of disappearance for certain key features such as force spikes, associated with the desorption of individual links and predicted by the statistical thermodynamic model under displacement control, from SMFS experiments. In studying the elastic response of a freely jointed chain stretched in 2D and 3D, we obtained analytical expressions for two modes of stretching: i) when force is applied only to one end of the chain, and ii) when the applied force is distributed uniformly throughout the chain. By comparing, we confirmed that these expressions correctly predict the results obtained from our Brownian dynamics simulations as well as experimental results from the literature.
Qian, Jing-guang; Rong, Ke; Qian, Zhenyun; Wen, Chen; Zhang, Songning
2015-01-01
[Purpose] The purpose of the study was to design and implement a multichannel dynamic functional electrical stimulation system and investigate acute effects of functional electrical stimulation of the tibialis anterior and rectus femoris on ankle and knee sagittal-plane kinematics and related muscle forces of hemiplegic gait. [Subjects and Methods] A multichannel dynamic electrical stimulation system was developed with 8-channel low frequency current generators. Eight male hemiplegic patients were trained for 4 weeks with electric stimulation of the tibia anterior and rectus femoris muscles during walking, which was coupled with active contraction. Kinematic data were collected, and muscle forces of the tibialis anterior and rectus femoris of the affected limbs were analyzed using a musculoskelatal modeling approach before and after training. A paired sample t-test was used to detect the differences between before and after training. [Results] The step length of the affected limb significantly increased after the stimulation was applied. The maximum dorsiflexion angle and maximum knee flexion angle of the affected limb were both increased significantly during stimulation. The maximum muscle forces of both the tibia anterior and rectus femoris increased significantly during stimulation compared with before functional electrical stimulation was applied. [Conclusion] This study established a functional electrical stimulation strategy based on hemiplegic gait analysis and musculoskeletal modeling. The multichannel functional electrical stimulation system successfully corrected foot drop and altered circumduction hemiplegic gait pattern. PMID:26696734
NASA Astrophysics Data System (ADS)
Seppä, Jeremias; Reischl, Bernhard; Sairanen, Hannu; Korpelainen, Virpi; Husu, Hannu; Heinonen, Martti; Raiteri, Paolo; Rohl, Andrew L.; Nordlund, Kai; Lassila, Antti
2017-03-01
Due to their operation principle atomic force microscopes (AFMs) are sensitive to all factors affecting the detected force between the probe and the sample. Relative humidity is an important and often neglected—both in experiments and simulations—factor in the interaction force between AFM probe and sample in air. This paper describes the humidity control system designed and built for the interferometrically traceable metrology AFM (IT-MAFM) at VTT MIKES. The humidity control is based on circulating the air of the AFM enclosure via dryer and humidifier paths with adjustable flow and mixing ratio of dry and humid air. The design humidity range of the system is 20–60 %rh. Force–distance adhesion studies at humidity levels between 25 %rh and 53 %rh are presented and compared to an atomistic molecular dynamics (MD) simulation. The uncertainty level of the thermal noise method implementation used for force constant calibration of the AFM cantilevers is 10 %, being the dominant component of the interaction force measurement uncertainty. Comparing the simulation and the experiment, the primary uncertainties are related to the nominally 7 nm radius and shape of measurement probe apex, possible wear and contamination, and the atomistic simulation technique details. The interaction forces are of the same order of magnitude in simulation and measurement (5 nN). An elongation of a few nanometres of the water meniscus between probe tip and sample, before its rupture, is seen in simulation upon retraction of the tip in higher humidity. This behaviour is also supported by the presented experimental measurement data but the data is insufficient to conclusively verify the quantitative meniscus elongation.
Okorokova, Elizaveta; Lebedev, Mikhail; Linderman, Michael; Ossadtchi, Alex
2015-01-01
In recent years, several assistive devices have been proposed to reconstruct arm and hand movements from electromyographic (EMG) activity. Although simple to implement and potentially useful to augment many functions, such myoelectric devices still need improvement before they become practical. Here we considered the problem of reconstruction of handwriting from multichannel EMG activity. Previously, linear regression methods (e.g., the Wiener filter) have been utilized for this purpose with some success. To improve reconstruction accuracy, we implemented the Kalman filter, which allows to fuse two information sources: the physical characteristics of handwriting and the activity of the leading hand muscles, registered by the EMG. Applying the Kalman filter, we were able to convert eight channels of EMG activity recorded from the forearm and the hand muscles into smooth reconstructions of handwritten traces. The filter operates in a causal manner and acts as a true predictor utilizing the EMGs from the past only, which makes the approach suitable for real-time operations. Our algorithm is appropriate for clinical neuroprosthetic applications and computer peripherals. Moreover, it is applicable to a broader class of tasks where predictive myoelectric control is needed. PMID:26578856
ERIC Educational Resources Information Center
Veiga, Amélia; Neave, Guy
2015-01-01
How do the constituencies in higher education re-interpret Bologna's function with regard to the European Higher Education Area? This research examines how institutional actors re-construct the policy framework in the light of their own institutional agendas. Drawing on empirical data from a survey of academics, students and administrative and…
Hohensinner, Severin; Sonnlechner, Christoph; Schmid, Martin; Winiwarter, Verena
As part of an interdisciplinary project on the environmental history of the Viennese Danube, the past river landscape was reconstructed. This article describes the different types of historical sources used for the GIS-based reconstruction, the underlying methodological approach and its limitations regarding reliability and information value. The reconstruction was based on three cornerstones: (1) the available historical sources; (2) knowledge about morphological processes typical for the Austrian Danube prior to regulation; and (3) the interpretation of past hydraulic measures with respect to their effectiveness and their impact on the river's behaviour. We compiled ten historical states of the riverscape step-by-step going backwards in time to the early 16th century. After one historical situation had been completed, we evaluated its relevance for the temporally younger situations and whether corrections would have to be made. Such a regressive-iterative approach allows for permanent critical revision of the reconstructed time segments already processed. The resulting maps of the Danube floodplain from 1529 to 2010 provide a solid basis for interpreting the environmental conditions for Vienna's urban development. They also help to localise certain riverine and urban landmarks (such as river arms or bridges) relevant for the history of Vienna. We conclude that the diversity of approaches and findings of the historical and natural sciences (river morphology, hydrology) provide key synergies.
NASA Technical Reports Server (NTRS)
Sutherland, I. A.
1973-01-01
The development is presented of a tooling system that makes a controlled sinusoidal oscillation simulating a dynamic chip removal condition. It also measures the machining forces in two mutually perpendicular directions without any cross sensitivity.
Identification of Object Dynamics Using Hand Worn Motion and Force Sensors.
Kortier, Henk G; Schepers, H Martin; Veltink, Peter H
2016-11-26
Emerging microelectromechanical system (MEMS)-based sensors become much more applicable for on-body measurement purposes lately. Especially, the development of a finger tip-sized tri-axial force sensor gives the opportunity to measure interaction forces between the human hand and environmental objects. We have developed a new prototype device that allows simultaneous 3D force and movement measurements at the finger and thumb tips. The combination of interaction forces and movements makes it possible to identify the dynamical characteristics of the object being handled by the hand. With this device attached to the hand, a subject manipulated mass and spring objects under varying conditions. We were able to identify and estimate the weight of two physical mass objects (0.44 kg: 29 . 3 % ± 18 . 9 % and 0.28 kg: 19 . 7 % ± 10 . 6 % ) and the spring constant of a physical spring object ( 16 . 3 % ± 12 . 6 % ). The system is a first attempt to quantify the interactions of the hand with the environment and has many potential applications in rehabilitation, ergonomics and sports.
Molecular Dynamics Simulation of Tri-n-Butyl-Phophate Liquid: A Force Field Comparative Study
Cui, Shengting; de Almeida, Valmor F; Hay, Benjamin; Ye, Xianggui; Khomami, Bamin
2012-01-01
Molecular dynamics (MD) simulations were conducted to compare the performance of four force fields in predicting thermophysical properties of tri-n-butyl-phosphate (TBP) in the liquid phase. The intramolecular force parameters used were from the Assisted Model Building with Energy Refinement (AMBER) force field model. The van der Waals parameters were based on either the AMBER or the Optimized Potential for Liquid Simulation (OPLS) force fields. The atomic partial charges were either assigned by performing quantum chemistry calculations or utilized previously published data, and were scaled to approximate the average experimental value of the electric dipole moment. Canonical ensemble computations based on the aforementioned parameters were performed near the atmospheric pressure and temperature to obtain the electric dipole moment, mass density, and self-diffusion coefficient. In addition, the microscopic structure of the liquid was characterized via pair correlation functions between selected atoms. It has been demonstrated that the electric dipole moment can be approximated within 1% of the average experimental value by virtue of scaled atomic partial charges. The liquid mass density can be predicted within 0.5-1% of its experimentally determined value when using the corresponding charge scaling. However, in all cases the predicted self- diffusion coefficient is significantly smaller than a commonly quoted experimental measurement; this result is qualified by the fact that the uncertainty of the experimental value was not available.
Molecular dynamics simulation of tri-n-butyl-phosphate liquid: a force field comparative study.
Cui, Shengting; de Almeida, Valmor F; Hay, Benjamin P; Ye, Xianggui; Khomami, Bamin
2012-01-12
Molecular dynamics (MD) simulations were conducted to compare the performance of four force fields in predicting thermophysical properties of tri-n-butyl-phosphate (TBP) in the liquid phase. The intramolecular force parameters used were from the Assisted Model Building with Energy Refinement (AMBER) force field model. The van der Waals parameters were based on either the AMBER or the Optimized Potential for Liquid Simulation (OPLS) force fields. The atomic partial charges were either assigned by performing quantum chemistry calculations or utilized previously published data, and were scaled to approximate the average experimental value of the electric dipole moment. Canonical ensemble computations based on the aforementioned parameters were performed near atmospheric pressure and temperature to obtain the electric dipole moment, mass density, and self-diffusion coefficient. In addition, the microscopic structure of the liquid was characterized via pair correlation functions between selected atoms. It has been demonstrated that the electric dipole moment can be approximated within 1% of the average experimental value by virtue of scaled atomic partial charges. The liquid mass density can be predicted within 0.5-1% of its experimentally determined value when using the corresponding charge scaling. However, in all cases, the predicted self-diffusion coefficient is significantly smaller than a commonly quoted experimental measurement; this result is qualified by the fact that the uncertainty of the experimental value was not available.
No-slip boundary conditions and forced flow in multiparticle collision dynamics.
Bolintineanu, Dan S; Lechman, Jeremy B; Plimpton, Steven J; Grest, Gary S
2012-12-01
Multiparticle collision dynamics (MPCD) is a particle-based fluid simulation technique that is becoming increasingly popular for mesoscale fluid modeling. However, some confusion and conflicting results persist in literature regarding several important methodological details, in particular the enforcement of the no-slip condition and thermostatting in forced flow. These issues persist in simple flows past stationary boundaries, which we exclusively focus on here. We discuss the parametrization of MPCD fluids and its consequences for fluid-solid boundaries in great detail, and show that the method of virtual particles proposed by Lamura et al. and adopted by many others is required only for parameter choices that lead to viscosities dominated by collisional contributions. We test several implementations of the virtual particle method and discuss how to completely eliminate slip at stationary boundaries. We also show that stochastic boundary reflection rules are inherently problematic for forced flow and suggest a possible remedy. Finally, we discuss the most robust way to achieve forced flow and evaluate several thermostatting methods in the process. All discussion is limited to solid objects that do not move as a result of collisions with MPCD particles (i.e., walls). However, the results can be extended to solutes that experience forces and torques due to interactions with MPCD particles (e.g., colloids). The detailed analysis presented for this simple case provides the level of rigor and accuracy to the MPCD method required for the study of more complex systems.
Identification of Object Dynamics Using Hand Worn Motion and Force Sensors
Kortier, Henk G.; Schepers, H. Martin; Veltink, Peter H.
2016-01-01
Emerging microelectromechanical system (MEMS)-based sensors become much more applicable for on-body measurement purposes lately. Especially, the development of a finger tip-sized tri-axial force sensor gives the opportunity to measure interaction forces between the human hand and environmental objects. We have developed a new prototype device that allows simultaneous 3D force and movement measurements at the finger and thumb tips. The combination of interaction forces and movements makes it possible to identify the dynamical characteristics of the object being handled by the hand. With this device attached to the hand, a subject manipulated mass and spring objects under varying conditions. We were able to identify and estimate the weight of two physical mass objects (0.44 kg: 29.3%±18.9% and 0.28 kg: 19.7%±10.6%) and the spring constant of a physical spring object (16.3%±12.6%). The system is a first attempt to quantify the interactions of the hand with the environment and has many potential applications in rehabilitation, ergonomics and sports. PMID:27898040
Lee, M.W.; Meuwly, M.
2013-01-01
The evaluation of hydration free energies is a sensitive test to assess force fields used in atomistic simulations. We showed recently that the vibrational relaxation times, 1D- and 2D-infrared spectroscopies for CN(-) in water can be quantitatively described from molecular dynamics (MD) simulations with multipolar force fields and slightly enlarged van der Waals radii for the C- and N-atoms. To validate such an approach, the present work investigates the solvation free energy of cyanide in water using MD simulations with accurate multipolar electrostatics. It is found that larger van der Waals radii are indeed necessary to obtain results close to the experimental values when a multipolar force field is used. For CN(-), the van der Waals ranges refined in our previous work yield hydration free energy between -72.0 and -77.2 kcal mol(-1), which is in excellent agreement with the experimental data. In addition to the cyanide ion, we also study the hydroxide ion to show that the method used here is readily applicable to similar systems. Hydration free energies are found to sensitively depend on the intermolecular interactions, while bonded interactions are less important, as expected. We also investigate in the present work the possibility of applying the multipolar force field in scoring trajectories generated using computationally inexpensive methods, which should be useful in broader parametrization studies with reduced computational resources, as scoring is much faster than the generation of the trajectories.
Faber, Gert S; Chang, Chien-Chi; Kingma, Idsart; Dennerlein, Jack T
2013-10-18
Direct measurement of hand forces during assessment of manual materials handling is infeasible in most field studies and some laboratory studies (e.g., during patient handling). Therefore, this study proposed and evaluated the performance of a novel hand force estimation method based on ground reaction forces (GRFs) and body segment accelerations. Ten male subjects performed a manual lifting/carrying task while an optoelectronic motion tracking system measured 3D full body kinematics, a force plate measured 3D GRFs and an instrumented box measured 3D hand forces. The estimated 3D hand forces were calculated by taking the measured GRF vector and subtracting the force vectors due to weight and acceleration of all body segments. Root-mean-square difference (RMSD) between estimated and measured hand forces ranged from 11 to 27N. When ignoring the segment accelerations (just subtracting body weight from the GRFs), the hand force estimation errors were much higher, with RMSDs ranging from 21 to 101N. Future studies should verify the performance of the proposed hand force estimation method when using an ambulatory field measurement system.
Modeling of stochastic dynamics of time-dependent flows under high-dimensional random forcing
NASA Astrophysics Data System (ADS)
Babaee, Hessam; Karniadakis, George
2016-11-01
In this numerical study the effect of high-dimensional stochastic forcing in time-dependent flows is investigated. To efficiently quantify the evolution of stochasticity in such a system, the dynamically orthogonal method is used. In this methodology, the solution is approximated by a generalized Karhunen-Loeve (KL) expansion in the form of u (x , t ω) = u ̲ (x , t) + ∑ i = 1 N yi (t ω)ui (x , t) , in which u ̲ (x , t) is the stochastic mean, the set of ui (x , t) 's is a deterministic orthogonal basis and yi (t ω) 's are the stochastic coefficients. Explicit evolution equations for u ̲ , ui and yi are formulated. The elements of the basis ui (x , t) 's remain orthogonal for all times and they evolve according to the system dynamics to capture the energetically dominant stochastic subspace. We consider two classical fluid dynamics problems: (1) flow over a cylinder, and (2) flow over an airfoil under up to one-hundred dimensional random forcing. We explore the interaction of intrinsic with extrinsic stochasticity in these flows. DARPA N66001-15-2-4055, Office of Naval Research N00014-14-1-0166.
Translocation dynamics of a short polymer driven by an oscillating force.
Pizzolato, Nicola; Fiasconaro, Alessandro; Adorno, Dominique Persano; Spagnolo, Bernardo
2013-02-07
We study the translocation dynamics of a short polymer moving in a noisy environment and driven by an oscillating force. The dynamics is numerically investigated by solving a Langevin equation in a two-dimensional domain. We consider a phenomenological cubic potential with a metastable state to model the polymer-pore interaction and the entropic free energy barrier characterizing the translocation process. The mean first translocation time of the center of inertia of polymers shows a nonmonotonic behavior, with a minimum, as a function of the number of the monomers. The dependence of the mean translocation time on the polymer chain length shows a monotonically increasing behavior for high values of the number of monomers. Moreover, the translocation time shows a minimum as a function of the frequency of the oscillating forcing field for all the polymer lengths investigated. This finding represents the evidence of the resonant activation phenomenon in the dynamics of polymer translocation, whose occurrence is maintained for different values of the noise intensity.
Exploratory Study of RNA Polymerase II Using Dynamic Atomic Force Microscopy
NASA Astrophysics Data System (ADS)
Rhodin, Thor; Umemura, Kazuo; Gad, Mohammed; Jarvis, Suzanne; Ishikawa, Mitsuru; Fu, Jianhua
2002-03-01
An exploratory study of the microtopological dimensions and shape features of yeast RNA polymerase II (y-poly II) on freshly cleaved mica was made in phosphate aqueous buffer solution at room temperature following previous work by Hansma and others. The molecules were imaged by stabilization on freshly cleaved mica at a limiting resolution of 10 Å and scanned using dynamical atomic force microscopy with a 10 nm multi-wall carbon nanotube in the resonance frequency modulation mode. They indicated microtopological shape and dimensional features similar to those predicted by electron density plots derived from the X-ray crystallographic model. It is concluded that this is considered primarily a feasibility study with definitive conclusions subject to more detailed systematic measurements of the 3D microtopology. These measurements appear to establish validity of the noncontact atomic force microscopy (nc-AFM) approach into defining the primary microtopology and biochemical functionality of RNA polymerase II. Further nc-AFM studies at higher resolution using dynamical nc-AFM will be required to clearly define the detailed 3D microtopology of RNA polymerase II in anaerobic aqueous environments for both static and dynamic conditions.
NASA Astrophysics Data System (ADS)
Soleymaniha, Mohammadreza; Felts, Jonathan Robert; Anml Team
2016-11-01
Fluid spreading is a complex phenomenon driven strongly by intermolecular forces that requires nanometer scale microscopy to observe and understand. We present a technique for measuring molten polymer spreading dynamics with nanometer scale spatial resolution at elevated temperatures on sapphire, silicon oxide and mica using tapping-mode atomic force microscopy (AFM). The experimental setup is used to measure the spreading dynamics of polystyrene droplets with 2 μ m diameters at 115-175 C. Custom image processing algorithms realize the droplet height, radius, volume and contact angle of the droplet over time. The contact angle evolution followed a power law with time with experimental exponent values of -0.26, -0.08, and -0.2 for sapphire, silicon oxide, and mica, respectively at 115 C. The non-zero steady state contact angles result in a slower evolution of contact angle with time compared to Tanner's Law, as expected. We observe local crystallinity on the molten droplet surface, where crystalline structures appear to nucleate at the contact line and migrate toward the top of the droplet. Increasing the temperature from 115 C to 175 C reduced surface crystallinity from 35% to 12%, consistent with increasingly energetically favorable amorphous phase as the temperature approaches the melting temperature. This platform provides a way to measure spreading dynamics of extremely small volumes of heterogeneously complex fluids not possible through other means. Dr.Jonathan Felts is the principal investigator of the ANML research group in Mechanical Engineering Department of Texas A&M University.
Dynamical Inference from a Kinematic Snapshot: The Force Law in the Solar System
NASA Astrophysics Data System (ADS)
Bovy, Jo; Murray, Iain; Hogg, David W.
2010-03-01
If a dynamical system is long-lived and non-resonant (that is, if there is a set of tracers that have evolved independently through many orbital times), and if the system is observed at any non-special time, it is possible to infer the dynamical properties of the system (such as the gravitational force or acceleration law) from a snapshot of the positions and velocities of the tracer population at a single moment in time. In this paper, we describe a general inference technique that solves this problem while allowing (1) the unknown distribution function of the tracer population to be simultaneously inferred and marginalized over, and (2) prior information about the gravitational field and distribution function to be taken into account. As an example, we consider the simplest problem of this kind: we infer the force law in the solar system using only an instantaneous kinematic snapshot (valid at 2009 April 1.0) for the eight major planets. We consider purely radial acceleration laws of the form ar = -A [r/r 0]-α, where r is the distance from the Sun. Using a probabilistic inference technique, we infer 1.989 < α < 2.052 (95% interval), largely independent of any assumptions about the distribution of energies and eccentricities in the system beyond the assumption that the system is phase-mixed. Generalizations of the methods used here will permit, among other things, inference of Milky Way dynamics from Gaia-like observations.
NASA Astrophysics Data System (ADS)
Wang, J.; Emile-Geay, J.; McKay, N.; Guillot, D.
2015-12-01
Reconstructions of surface temperature over the past 2000 years extend our knowledge of temperature changes beyond the instrumental era, and thus allows for the characterization of climate variability on multidecadal to centennial timescales. This lends insight into our understanding and quantification of the influence of exogenous and endogenous global climate variability. In this study, we do so via a set of global temperature reconstructions based on the latest incarnation of the PAGES 2k global multi-proxy database (http://www.pages-igbp.org/ini/wg/2k-network/data/phase-2-data-status). Two climate field reconstruction (CFR) methods are employed: Gaussian graphical models embedded within the regularized EM algorithm (GraphEM, Guillot et al., 2015) and Canonical Correlation Analysis (CCA, Smerdon et al., 2010). We find a globally warm Medieval period, which was colder than the late twentieth-century by 0.5 C. With a probability of 87%, the 1961 - 1990 period was the warmest 40-year period in the past 2000 years in most regions, especially in the high latitudes of the Northern Hemisphere. We show that surface temperature has a robust large-scale cooling pattern shortly after a volcanic eruption; in particular, over the North Atlantic Ocean, the cooling can persist up to 3 years after an eruption. An El Niño-like response (~0.2 C) is also found in 2 and 3 years after an eruption. Solar irradiance forcing is found to be an important modulator of multidecadal climate variability, with the strongest solar response (0.25 C) in high latitude North America. These key features are echoed in multiple GCM simulations of the last millennium, though we find notable differences, in particular regarding the timing of the post-volcanic ENSO response, and the magnitude of the temperature response to solar irradiance forcing. The results suggest that there is no fundamental discrepancy between simulated and reconstructed climates of the last millennium, and thus lend credibility
The effects of remote SST forcings on ENSO dynamics, variability and diversity
NASA Astrophysics Data System (ADS)
Dommenget, Dietmar; Yu, Yanshan
2016-12-01
Air-sea interactions with remote regions in the tropical Indian and Atlantic, and extra-tropical oceans can influence ENSO features in the tropical Pacific. In this study these effects are explored by using an AGCM coupled with a Slab Ocean and a simple recharge oscillator ENSO model through switched on/off air-sea interaction in respective ocean area. It is shown that the decoupling in different remote regions has different impacts on ENSO dynamics, variability and diversity. The most interesting result is that the air-sea interactions with remote tropical oceans provide a delayed negative feedback to ENSO similar to that of the tropical Pacific Ocean internal wave dynamics. This is caused by the ENSO teleconnections: they lead to a delayed remote warming and cooling, which in turn feedbacks to ENSO effectively giving a delayed negative feedback. The model simulations suggest that this remote delayed feedback may contribute about 40% to the total delayed negative feedback of ENSO. Thus a central element of ENSO dynamics is partly due to interactions with other tropical ocean basins by atmospheric teleconnections. Furthermore, all remote regions effectively provide stochastic forcings for the ENSO variability and therefore increase the ENSO variability. The influence from the remote regions also causes different patterns of sea surface temperature (SST) variability in the tropical Pacific, contributing to the diversity of the ENSO mode. In particular the extra-tropical Pacific regions force SST variability that is different from the equatorial ENSO mode of variability. The influence that the remote regions have on the ENSO dynamics and variability is significantly altered by the interaction between the equatorial recharge oscillator dynamics and the simple thermodynamic slab ocean processes.
1991-02-01
Unlimited 13. ABSTRACT (Awammumf 200 wveas) A two -scale analysis of the forced Rayleigh - Plesset equation of cavitation bubble dynamics is performed. The...Dst I;-,; -I I I’W A-1i ii ABSTRACT A two -scale analysis of the forced Rayleigh - Plesset equation of cavitation bubble dynamics is...found for the Rayleigh - Plesset equation in terms of the two dimensionless time scales involved in the perturbation expansion for the point when Cp
Shi, Junfen; Curtis, Neil; Fitton, Laura C; O'Higgins, Paul; Fagan, Michael J
2012-10-07
An accurate, dynamic, functional model of the skull that can be used to predict muscle forces, bite forces, and joint reaction forces would have many uses across a broad range of disciplines. One major issue however with musculoskeletal analyses is that of muscle activation pattern indeterminacy. A very large number of possible muscle force combinations will satisfy a particular functional task. This makes predicting physiological muscle recruitment patterns difficult. Here we describe in detail the process of development of a complex multibody computer model of a primate skull (Macaca fascicularis), that aims to predict muscle recruitment patterns during biting. Using optimisation criteria based on minimisation of muscle stress we predict working to balancing side muscle force ratios, peak bite forces, and joint reaction forces during unilateral biting. Validation of such models is problematic; however we have shown comparable working to balancing muscle activity and TMJ reaction ratios during biting to those observed in vivo and that peak predicted bite forces compare well to published experimental data. To our knowledge the complexity of the musculoskeletal model is greater than any previously reported for a primate. This complexity, when compared to more simple representations provides more nuanced insights into the functioning of masticatory muscles. Thus, we have shown muscle activity to vary throughout individual muscle groups, which enables them to function optimally during specific masticatory tasks. This model will be utilised in future studies into the functioning of the masticatory apparatus.
Low-speed static and dynamic force tests of a generic supersonic cruise fighter configuration
NASA Technical Reports Server (NTRS)
Hahne, David E.
1989-01-01
Static and dynamic force tests of a generic fighter configuration designed for sustained supersonic flight were conducted in the Langley 30- by 60-foot tunnel. The baseline configuration had a 65 deg arrow wing, twin wing mounted vertical tails and a canard. Results showed that control was available up to C sub L,max (maximum lift coefficient) from aerodynamic controls about all axes but control in the pitch and yaw axes decreased rapidly in the post-stall angle-of-attack region. The baseline configuration showed stable lateral-directional characteristics at low angles of attack but directional stability occurred near alpha = 25 deg as the wing shielded the vertical tails. The configuration showed positive effective dihedral throughout the test angle-of-attack range. Forced oscillation tests indicated that the baseline configuration had stable damping characteristics about the lateral-directional axes.
Guo, Huijuan; Li, Tao; Cao, Xiaotao; Xiong, Jin; Jie, Yang; Willander, Magnus; Cao, Xia; Wang, Ning; Wang, Zhong Lin
2017-01-24
Triboelectric nanogenerators (TENGs) offer great opportunities to deploy advanced wearable electronics that integrate a power generator and smart sensor, which eliminates the associated cost and sustainability concerns. Here, an embodiment of such integrated platforms has been presented in a graphene oxide (GO) based single-electrode TENG (S-TENG). The as-designed multifunctional device could not only harvest tiny bits of mechanical energy from ambient movements with a high power density of 3.13 W·m(-2) but also enable detecting dynamic force with an excellent sensitivity of about 388 μA·MPa(-1). Because of the two-dimensional nanostructure and excellent surface properties, the GO-based S-TENG shows sensitive force detection and sound antimicrobial activity in comparison with conventional poly(tetrafluoroethylene) (PTFE) electrodes. This technology offers great applicability prospects in portable/wearable electronics, micro/nanoelectromechanical devices, and self-powered sensors.
Intramolecular Force Contrast and Dynamic Current-Distance Measurements at Room Temperature
NASA Astrophysics Data System (ADS)
Huber, F.; Matencio, S.; Weymouth, A. J.; Ocal, C.; Barrena, E.; Giessibl, F. J.
2015-08-01
Scanning probe microscopy can be used to probe the internal atomic structure of flat organic molecules. This technique requires an unreactive tip and has, until now, been demonstrated only at liquid helium and liquid nitrogen temperatures. We demonstrate intramolecular and intermolecular force contrast at room temperature on PTCDA molecules adsorbed on a Ag /Si (111 )-(√{3 }×√{3 }) surface. The oscillating force sensor allows us to dynamically measure the vertical decay constant of the tunneling current. The precision of this method is increased by quantifying the transimpedance of the current to voltage converter and accounting for the tip oscillation. This measurement yields a clear contrast between neighboring molecules, which we attribute to the different charge states.
Dynamics of a disturbed sessile drop measured by atomic force microscopy (AFM).
McGuiggan, Patricia M; Grave, Daniel A; Wallace, Jay S; Cheng, Shengfeng; Prosperetti, Andrea; Robbins, Mark O
2011-10-04
A new method for studying the dynamics of a sessile drop by atomic force microscopy (AFM) is demonstrated. A hydrophobic microsphere (radius, r ∼ 20-30 μm) is brought into contact with a small sessile water drop resting on a polytetrafluoroethylene (PTFE) surface. When the microsphere touches the liquid surface, the meniscus rises onto it because of capillary forces. Although the microsphere volume is 6 orders of magnitude smaller than the drop, it excites the normal resonance modes of the liquid interface. The sphere is pinned at the interface, whose small (<100 nm) oscillations are readily measured with AFM. Resonance oscillation frequencies were measured for drop volumes between 5 and 200 μL. The results for the two lowest normal modes are quantitatively consistent with continuum calculations for the natural frequency of hemispherical drops with no adjustable parameters. The method may enable sensitive measurements of volume, surface tension, and viscosity of small drops.
Cantilever tilt causing amplitude related convolution in dynamic mode atomic force microscopy.
Wang, Chunmei; Sun, Jielin; Itoh, Hiroshi; Shen, Dianhong; Hu, Jun
2011-01-01
It is well known that the topography in atomic force microscopy (AFM) is a convolution of the tip's shape and the sample's geometry. The classical convolution model was established in contact mode assuming a static probe, but it is no longer valid in dynamic mode AFM. It is still not well understood whether or how the vibration of the probe in dynamic mode affects the convolution. Such ignorance complicates the interpretation of the topography. Here we propose a convolution model for dynamic mode by taking into account the typical design of the cantilever tilt in AFMs, which leads to a different convolution from that in contact mode. Our model indicates that the cantilever tilt results in a dynamic convolution affected by the absolute value of the amplitude, especially in the case that corresponding contact convolution has sharp edges beyond certain angle. The effect was experimentally demonstrated by a perpendicular SiO(2)/Si super-lattice structure. Our model is useful for quantitative characterizations in dynamic mode, especially in probe characterization and critical dimension measurements.
NASA Astrophysics Data System (ADS)
Qian, Jianguo; Lee, Louis; Liu, Wu; Chu, Karen; Mok, Edward; Luxton, Gary; Le, Quynh-Thu; Xing, Lei
2010-07-01
Volumetric modulated arc therapy (VMAT) has recently emerged as a new clinical modality for conformal radiation therapy. The aim of this work is to establish a methodology and procedure for retrospectively reconstructing the actual dose delivered in VMAT based on the pre-treatment cone-beam computed tomography (CBCT) and dynamic log files. CBCT was performed before the dose delivery and the system's log files were retrieved after the delivery. Actual delivery at a control point including MLC leaf positions, gantry angles and cumulative monitor units (MUs) was recorded in the log files and the information was extracted using in-house developed software. The extracted information was then embedded into the original treatment DICOM-radiation therapy (RT) file to replace the original control point parameters. This reconstituted DICOM-RT file was imported into the Eclipse treatment planning system (TPS) and dose was computed on the corresponding CBCT. A series of phantom experiments was performed to show the feasibility of dose reconstruction, validate the procedure and demonstrate the efficacy of this methodology. The resultant dose distributions and dose-volume histograms (DVHs) were compared with those of the original treatment plan. The studies indicated that CBCT-based VMAT dose reconstruction is readily achievable and provides a valuable tool for monitoring the dose actually delivered to the tumor target as well as the sensitive structures. In the absence of setup errors, the reconstructed dose shows no significant difference from the original pCT-based plan. It is also elucidated that the proposed method is capable of revealing the dosimetric changes in the presence of setup errors. The method reported here affords an objective means for dosimetric evaluation of VMAT delivery and is useful for adaptive VMAT in future. This work was presented at the 2009 Annual Meeting of AAPM, Anaheim, CA.
Qian, Jianguo; Lee, Louis; Liu, Wu; Chu, Karen; Mok, Edward; Luxton, Gary; Le, Quynh-Thu; Xing, Lei
2010-07-07
Volumetric modulated arc therapy (VMAT) has recently emerged as a new clinical modality for conformal radiation therapy. The aim of this work is to establish a methodology and procedure for retrospectively reconstructing the actual dose delivered in VMAT based on the pre-treatment cone-beam computed tomography (CBCT) and dynamic log files. CBCT was performed before the dose delivery and the system's log files were retrieved after the delivery. Actual delivery at a control point including MLC leaf positions, gantry angles and cumulative monitor units (MUs) was recorded in the log files and the information was extracted using in-house developed software. The extracted information was then embedded into the original treatment DICOM-radiation therapy (RT) file to replace the original control point parameters. This reconstituted DICOM-RT file was imported into the Eclipse treatment planning system (TPS) and dose was computed on the corresponding CBCT. A series of phantom experiments was performed to show the feasibility of dose reconstruction, validate the procedure and demonstrate the efficacy of this methodology. The resultant dose distributions and dose-volume histograms (DVHs) were compared with those of the original treatment plan. The studies indicated that CBCT-based VMAT dose reconstruction is readily achievable and provides a valuable tool for monitoring the dose actually delivered to the tumor target as well as the sensitive structures. In the absence of setup errors, the reconstructed dose shows no significant difference from the original pCT-based plan. It is also elucidated that the proposed method is capable of revealing the dosimetric changes in the presence of setup errors. The method reported here affords an objective means for dosimetric evaluation of VMAT delivery and is useful for adaptive VMAT in future.
Development of a Forced Oscillation System for Measuring Dynamic Derivatives of Fluidic Vehicles
NASA Technical Reports Server (NTRS)
Trieu, B. C.; Tyler, T. R.; Stewart, B. K.; Chamock, J. K.; Fisher, D. W.; Heim, E. H.; Brandon, J.; Grafton, S. B.
2006-01-01
A new Forced Oscillation System (FOS) has been designed and built at NASA Langley Research Center that provides new capabilities for aerodynamic researchers to investigate the dynamic derivatives of vehicle configurations. Test vehicles may include high performance and general aviation aircraft, re-entry spacecraft, submarines and other fluidic vehicles. The measured data from forced oscillation testing is used in damping characteristic studies and in simulation databases for control algorithm development and performance analyses. The newly developed FOS hardware provides new flexibility for conducting dynamic derivative studies. The design is based on a tracking principle where a desired motion profile is achieved via a fast closed-loop positional controller. The motion profile for the tracking system is numerically generated and thus not limited to sinusoidal motion. This approach permits non-traditional profiles such as constant velocity and Schroeder sweeps. Also, the new system permits changes in profile parameters including nominal offset angle, waveform, and associated parameters such as amplitude and frequency. Most importantly, the changes may be made remotely without halting the FOS and the tunnel. System requirements, system analysis, and the resulting design are addressed for a new FOS in the 12-Foot Low-Speed Wind Tunnel (LSWT). The overall system including mechanical, electrical, and control subsystems is described. The design is complete, and the FOS has been built and installed in the 12-Foot LSWT. System integration and testing have verified design intent and safe operation. Currently it is being validated for wind-tunnel operations and aerodynamic testing. The system is a potential major enhancement to forced oscillation studies. The productivity gain from the motion profile automation will shorten the testing cycles needed for control surface and aircraft control algorithm development. The new motion capabilities also will serve as a test bed for
Reconstruction of the Greenland ice sheet dynamics in a fully coupled Earth System Model
NASA Astrophysics Data System (ADS)
Rybak, Oleg; Volodin, Evgeny; Huybrechts, Philippe
2016-04-01
Earth system models (ESMs) are undoubtedly effective tools for studying climate dynamics. Incorporation of evolving ice sheets to ESMs is a challenging task because response times of the climate system and of ice sheets differ by several orders of magnitude. Besides, AO GCMs operate on spatial and temporal resolutions substantially differing from those of ice sheet models (ICMs). Therefore elaboration of an effective coupling methodology of an AO GCM and an ICM is the key problem of an ESM construction and utilization. Several downscaling strategies of varying complexity exist now of data exchange between modeled climate system and ice sheets. Application of a particular strategy depends on the research objectives. In our view, the optimum approach for model studying of significant environmental changes (e.g. glacial/interglacial transitions) when ice sheets undergo substantial evolution of geometry and volume would be an asynchronous coupling. The latter allows simulation in the interactive way of growth and decay of ice sheets in the changing climatic conditions. In the focus of the presentation, is the overview of coupling aspects of an AO GCM INMCM32 elaborated in the Institute of Numerical Mathematics (Moscow, Russia) to the Greenland ice sheet model (GrISM, Vrije Uninersiteit Brussel, Belgium). To provide interactive coupling of INMCM32 (spatial resolution 5°×4°, 21 vertical layers and temporal resolution 6 min. in the atmospheric block) and GrISM (spatial resolution 20×20 km, 51 vertical layers and 1 yr temporal resolution), we employ a special energy- and water balance model (EWBM-G), which serves as a buffer providing effective data exchange between INMCM32 and GrISM. EWBM-G operates in a rectangle domain including Greenland. Transfer of daily meanings of simulated climatic variables (air surface temperature and specific humidity) is provided on the lateral boundarias of the domain and inside the domain (sea level air pressure, wind speed and total
Nonlinear 2D arm dynamics in response to continuous and pulse-shaped force perturbations.
Happee, Riender; de Vlugt, Erwin; van Vliet, Bart
2015-01-01
Ample evidence exists regarding the nonlinearity of the neuromuscular system but linear models are widely applied to capture postural dynamics. This study quantifies the nonlinearity of human arm postural dynamics applying 2D continuous force perturbations (0.2-40 Hz) inducing three levels of hand displacement (5, 15, 45 mm RMS) followed by force-pulse perturbations inducing large hand displacements (up to 250 mm) in a position task (PT) and a relax task (RT) recording activity of eight shoulder and elbow muscles. The continuous perturbation data were used to analyze the 2D endpoint dynamics in the frequency domain and to identify reflexive and intrinsic parameters of a linear neuromuscular shoulder-elbow model. Subsequently, it was assessed to what extent the large displacements in response to force pulses could be predicted from the 'small amplitude' linear neuromuscular model. Continuous and pulse perturbation responses with varying amplitudes disclosed highly nonlinear effects. In PT, a larger continuous perturbation induced stiffening with a factor of 1.5 attributed to task adaptation evidenced by increased co-contraction and reflexive activity. This task adaptation was even more profound in the pulse responses where reflexes and displacements were strongly affected by the presence and amplitude of preceding continuous perturbations. In RT, a larger continuous perturbation resulted in yielding with a factor of 3.8 attributed to nonlinear mechanical properties as no significant reflexive activity was found. Pulse perturbations always resulted in yielding where a model fitted to the preceding 5-mm continuous perturbations predicted only 37% of the recorded peak displacements in RT and 79% in PT. This demonstrates that linear neuromuscular models, identified using continuous perturbations with small amplitudes, strongly underestimate displacements in pulse-shaped (e.g., impact) loading conditions. The data will be used to validate neuromuscular models including
Inverse Force Determination on a Small Scale Launch Vehicle Model Using a Dynamic Balance
NASA Technical Reports Server (NTRS)
Ngo, Christina L.; Powell, Jessica M.; Ross, James C.
2017-01-01
A launch vehicle can experience large unsteady aerodynamic forces in the transonic regime that, while usually only lasting for tens of seconds during launch, could be devastating if structural components and electronic hardware are not designed to account for them. These aerodynamic loads are difficult to experimentally measure and even harder to computationally estimate. The current method for estimating buffet loads is through the use of a few hundred unsteady pressure transducers and wind tunnel test. Even with a large number of point measurements, the computed integrated load is not an accurate enough representation of the total load caused by buffeting. This paper discusses an attempt at using a dynamic balance to experimentally determine buffet loads on a generic scale hammer head launch vehicle model tested at NASA Ames Research Center's 11' x 11' transonic wind tunnel. To use a dynamic balance, the structural characteristics of the model needed to be identified so that the natural modal response could be and removed from the aerodynamic forces. A finite element model was created on a simplified version of the model to evaluate the natural modes of the balance flexures, assist in model design, and to compare to experimental data. Several modal tests were conducted on the model in two different configurations to check for non-linearity, and to estimate the dynamic characteristics of the model. The experimental results were used in an inverse force determination technique with a psuedo inverse frequency response function. Due to the non linearity, the model not being axisymmetric, and inconsistent data between the two shake tests from different mounting configuration, it was difficult to create a frequency response matrix that satisfied all input and output conditions for wind tunnel configuration to accurately predict unsteady aerodynamic loads.
NASA Astrophysics Data System (ADS)
Menant, Armel; Jolivet, Laurent; Vrielynck, Bruno
2016-04-01
The relationship between subduction dynamics and crustal deformation in the Mediterranean region has been recently studied using three-dimensional (3D) models. Such models require, however, detailed information concerning the past geological evolution. We use stratigraphic, petrologic, metamorphic, structural, paleomagnetic and magmatic data to build new kinematic reconstructions of the eastern Mediterranean region since the late Cretaceous using the principle of non-rigid domains. The motions of the 56 deforming domains defined in this work are calculated based on published paleomagnetic rotations, the directions and amounts of displacement on crustal-scale shear zones and the burial and exhumation histories of the main metamorphic units. Extracted from these reconstructions, paleotectonic maps and lithospheric-scale cross-sections illustrate that the present-day subduction zone has been continuously retreating southward since the late Cretaceous and has accreted several small continental domains in the process. We find evidence for two back-arc-related extensional events: (1) slow extension along the Balkans and the Pontides in the late Cretaceous while the trench was long and linear and (2) faster extension in the Rhodope-Aegean-west Anatolian region since the Eocene-Oligocene. Rapid rotation of the Hellenides between 15 and 8 Ma probably indicates a slab tearing event below western Anatolia that could have further accelerated this extensional kinematics. Spatial distribution and the geochemical signature of magmatic centers integrated in these reconstructions allow us to trace mantle-related processes revealing the deep dynamics that controls both the magma genesis and the crustal deformation.
van der Werf, N R; Willemink, M J; Willems, T P; Greuter, M J W; Leiner, T
2017-01-19
To evaluate the influence of dose reduction in combination with iterative reconstruction (IR) on coronary calcium scores (CCS) in a dynamic phantom on state-of-the-art CT systems from different manufacturers. Calcified inserts in an anthropomorphic chest phantom were translated at 20 mm/s corresponding to heart rates between 60 and 75 bpm. The inserts were scanned five times with routinely used CCS protocols at reference dose and 40 and 80% dose reduction on four high-end CT systems. Filtered back projection (FBP) and increasing levels of IR were applied. Noise levels were determined. CCS, quantified as Agatston and mass scores, were compared to physical mass and scores at FBP reference dose. For the reference dose in combination with FBP, noise level variation between CT systems was less than 18%. Decreasing dose almost always resulted in increased CCS, while at increased levels of IR, CCS decreased again. The influence of IR on CCS was smaller than the influence of dose reduction. At reference dose, physical mass was underestimated 3-30%. All CT systems showed similar CCS at 40% dose reduction in combinations with specific reconstructions. For some CT systems CCS was not affected at 80% dose reduction, in combination with IR. This multivendor study showed that radiation dose reductions of 40% did not influence CCS in a dynamic phantom using state-of-the-art CT systems in combination with specific reconstruction settings. Dose reduction resulted in increased noise and consequently increased CCS, whereas increased IR resulted in decreased CCS.
NASA Astrophysics Data System (ADS)
Hong, Mei; Zhang, Ren; Wang, Dong; Feng, Mang; Wang, Zhengxin; Singh, Vijay P.
2015-07-01
To address the inaccuracy of long-term El Niño-Southern Oscillation (ENSO) forecasts, a new dynamical-statistical forecasting model of the ENSO index was developed based on dynamical model reconstruction and improved self-memorization. To overcome the problem of single initial prediction values, the largest Lyapunov exponent was introduced to improve the traditional self-memorization function, thereby making it more effective for describing chaotic systems, such as ENSO. Equation reconstruction, based on actual data, was used as a dynamical core to overcome the problem of using a simple core. The developed dynamical-statistical forecasting model of the ENSO index is used to predict the sea surface temperature anomaly in the equatorial eastern Pacific and El Niño/La Niña events. The real-time predictive skills of the improved model were tested. The results show that our model predicted well within lead times of 12 months. Compared with six mature models, both temporal correlation and root mean square error of the improved model are slightly worse than those of the European Centre for Medium-Range Weather Forecasts model, but better than those of the other five models. Additionally, the margin between the forecast results in summer and those in winter is not great, which means that the improved model can overcome the "spring predictability barrier", to some extent. Finally, a real-time prediction experiment is carried out beginning in September 2014. Our model is a new exploration of the ENSO forecasting method.
[Methods of microorganism immobilization for dynamic atomic-force studies (review)].
Kuiukina, M S; Korshunova, I O; Rubtsova, E V; Ivshina, I B
2014-01-01
Atomic-force microscopy (AFM) is an efficient method for studying the surface ultrastructure and nanomechanical properties of biological objects (including microorganisms). A correctly selected method of microorganism immobilization (that provides a strong attachment of cells on the surface of a biologically inert substrate and the preservation of their native properties) is an important condition of AFM scanning in a liquid medium. Comparative characteristics of methods of microorganism immobilization (that are applied in dynamic AFM studies) are given in the review. Technologies of mechanical retention and chemical binding of cells to a substrate, as well as protein and immunospecific adsorption, are considered.
Dynamics of ions in a water drop using the AMOEBA polarizable force field
NASA Astrophysics Data System (ADS)
Thaunay, Florian; Ohanessian, Gilles; Clavaguéra, Carine
2017-03-01
Various ions carrying a charge from -2 to +3 were confined in a drop of 100 water molecules as a way to model coordination properties inside the cluster and at the interface. The behavior of the ions has been followed by molecular dynamics with the AMOEBA polarizable force field. Multiply charged ions and small singly charged ions are found to lie inside the droplet, while bigger monovalent ions sit near the surface. The results provide a coherent picture of average structural properties as well as residence times for which a general trend is proposed, especially for the anions.
Molecular dynamics with on-the-fly machine learning of quantum-mechanical forces.
Li, Zhenwei; Kermode, James R; De Vita, Alessandro
2015-03-06
We present a molecular dynamics scheme which combines first-principles and machine-learning (ML) techniques in a single information-efficient approach. Forces on atoms are either predicted by Bayesian inference or, if necessary, computed by on-the-fly quantum-mechanical (QM) calculations and added to a growing ML database, whose completeness is, thus, never required. As a result, the scheme is accurate and general, while progressively fewer QM calls are needed when a new chemical process is encountered for the second and subsequent times, as demonstrated by tests on crystalline and molten silicon.
Molecular Dynamics with On-the-Fly Machine Learning of Quantum-Mechanical Forces
NASA Astrophysics Data System (ADS)
Li, Zhenwei; Kermode, James R.; De Vita, Alessandro
2015-03-01
We present a molecular dynamics scheme which combines first-principles and machine-learning (ML) techniques in a single information-efficient approach. Forces on atoms are either predicted by Bayesian inference or, if necessary, computed by on-the-fly quantum-mechanical (QM) calculations and added to a growing ML database, whose completeness is, thus, never required. As a result, the scheme is accurate and general, while progressively fewer QM calls are needed when a new chemical process is encountered for the second and subsequent times, as demonstrated by tests on crystalline and molten silicon.
Cutting down the forest of peaks in acoustic dynamic atomic force microscopy in liquid.
Carrasco, C; Ares, P; de Pablo, P J; Gómez-Herrero, J
2008-12-01
Acoustic dynamic force microscopy in liquids is a fundamental technique for the investigation of biological samples under physiological conditions. However, it shows an important drawback that consists of producing a myriad of resonance peaks, known as the forest of peaks, which hides the natural resonance frequency of the cantilever and prevents an optimum operation of the microscope. In this work, we propose a simple remedy for this problem, which consists on adding a small clay damper to the dither piezoelectric. The resulting frequency spectrum exhibits a single resonance peak that is comparable with the one obtained using magnetic excitation.
Harris, Jeff R.; Lance, Blake W.; Smith, Barton L.
2015-08-10
We present computational fluid dynamics (CFD) validation dataset for turbulent forced convection on a vertical plate. The design of the apparatus is based on recent validation literature and provides a means to simultaneously measure boundary conditions (BCs) and system response quantities (SRQs). Important inflow quantities for Reynolds-Averaged Navier-Stokes (RANS). CFD are also measured. Data are acquired at two heating conditions and cover the range 40,000 < Re_{x} < 300,000, 357 < Re_{δ2} < 813, and 0.02 < Gr/Re^{2} < 0.232.
Bdikin, Igor; Kholkin, Andrei; Morozovska, A. N.; Svechnikov, S. V.; Kim, S.-H.; Kalinin, Sergei V
2008-01-01
Domain dynamics in the Piezoresponse Force Spectroscopy (PFS) experiment is studied using the combination of local hysteresis loop acquisition with simultaneous domain imaging. The analytical theory for PFS signal from domain of arbitrary cross-section and length is developed for the analysis of experimental data on Pb(Zr,Ti)O3 polycrystalline films. The results suggest formation of oblate domain at early stage of the nucleation and growth, consistent with efficient screening of depolarization field. The fine structure of the hysteresis loop is shown to be related to the observed jumps in the domain geometry during domain wall propagation (nanoscale Barkhausen jumps), indicative of strong domain-defect interactions.
Slip-length measurement of confined air flow using dynamic atomic force microscopy.
Maali, Abdelhamid; Bhushan, Bharat
2008-08-01
We present an experimental measurement of the slip length of air flow close to solid surfaces using an atomic force microscope (AFM) in dynamic mode. The air was confined between a glass surface and a spherical glass particle glued to an AFM cantilever. The Knudsen number was varied continuously over three decades by varying the distance between the two surfaces. Our results show that the effect of confining the air is purely dissipative. The data are described by an isothermal Maxwell slip-boundary condition, and the measured slip-length value was 118 nm .
Harris, Jeff R.; Lance, Blake W.; Smith, Barton L.
2015-08-10
We present computational fluid dynamics (CFD) validation dataset for turbulent forced convection on a vertical plate. The design of the apparatus is based on recent validation literature and provides a means to simultaneously measure boundary conditions (BCs) and system response quantities (SRQs). Important inflow quantities for Reynolds-Averaged Navier-Stokes (RANS). CFD are also measured. Data are acquired at two heating conditions and cover the range 40,000 < Rex < 300,000, 357 < Reδ2 < 813, and 0.02 < Gr/Re2 < 0.232.
Fang, Suqin; Yan, Xiaolong; Liao, Hong
2009-12-01
Root architecture plays important roles in plant water and nutrient acquisition. However, accurate modeling of the root system that provides a realistic representation of roots in the soil is limited by a lack of appropriate tools for the non-destructive and precise measurement of the root system architecture in situ. Here we describe a root growth system in which the roots grow in a solid gel matrix that was used to reconstruct 3D root architecture in situ and dynamically simulate its changes under various nutrient conditions with a high degree of precision. A 3D laser scanner combined with a transparent gel-based growth system was used to capture 3D images of roots. The root system skeleton was extracted using a skeleton extraction method based on the Hough transformation, and mesh modeling using Ball-B spline was employed. We successfully used this system to reconstruct rice and soybean root architectures and determine their changes under various phosphorus (P) supply conditions. Our results showed that the 3D root architecture parameters that were dynamically calculated based on the skeletonization and simulation of root systems were significantly correlated with the biomass and P content of rice and soybean based on both the simulation system and previous reports. Therefore, this approach provides a novel technique for the study of crop root growth and its adaptive changes to various environmental conditions.
Dynamics of field-aligned currents reconstructed by the ground-based and satellite data
NASA Astrophysics Data System (ADS)
Nikolaeva, V. D.; Kotikov, A. L.; Sergienko, T. I.
2014-09-01
Parameters of field-aligned currents reconstructed by ground-based measurements of magnetic field in the Scandinavian countries (IMAGE) and ionospheric conductivity for specific events of the 6 and 8 December 2004 are represented here. Ionospheric conductivity was calculated from precipitating electron flux measured at DMSP-13 satellite and electron density EISCAT incoherent scattering radar direct measurements. There is a high correlation between field-aligned currents, calculated from DMSP-13 satellite data and field-aligned currents calculated from radar measurements for the December 6, 2004 in the presence of developed ionospheric current system. The comparison of field-aligned currents, reconstructed by the proposed method, with the currents calculated by the variation of magnetic field on the DMSP satellites, confirms correctness of the offered algorithm.
Goicochea, Armando Gama; Alarcón, Francisco
2011-01-07
The thermodynamic properties of a simple fluid confined by effective wall forces are calculated using Monte Carlo simulations in the grand canonical ensemble. The solvation force produced by polymer brushes of two different lengths is obtained also. For the particular type of model interactions used, known as the dissipative particle dynamics method, we find that it is possible to obtain an exact, simple expression for the effective force induced by a planar wall composed of identical particles that interact with those in the fluid. We show that despite the short range of all forces in the model, the solvation force can be finite at relatively large distances and therefore does not depend only on the range of the interparticle or solvent-surface forces. As for the polymer brushes, we find that the shape of the solvation force profiles is in fair agreement with scaling and self-consistent field theories. The applications and possible extensions of this work are discussed.
Johannesson, G; Chow, F K; Glascoe, L; Glaser, R E; Hanley, W G; Kosovic, B; Krnjajic, M; Larsen, S C; Lundquist, J K; Mirin, A A; Nitao, J J; Sugiyama, G A
2005-11-16
Atmospheric releases of hazardous materials are highly effective means to impact large populations. We propose an atmospheric event reconstruction framework that couples observed data and predictive computer-intensive dispersion models via Bayesian methodology. Due to the complexity of the model framework, a sampling-based approach is taken for posterior inference that combines Markov chain Monte Carlo (MCMC) and sequential Monte Carlo (SMC) strategies.
NASA Astrophysics Data System (ADS)
Schook, D. M.; Friedman, J. M.; Rathburn, S. L.
2014-12-01
Ecosystems and societies worldwide have evolved to depend upon the timing and magnitude of river discharge, and understanding past flows can help guide modern water management. We used tree rings of riparian plains cottonwoods (Populus deltoides subsp. monilifera) to reconstruct the history of flow variation and channel migration of a 20 km reach of the Yellowstone River in eastern Montana. Dendrochronological flow reconstructions commonly use upland trees, but our study highlights the improved resolution when floodplain trees are integrated into the data set . Our sample of 240 cottonwoods dating back to 1751 permits flow reconstruction of the Yellowstone to before the voyage of Lewis and Clark. Our tree ring series intercorrelation coefficient is 0.58, and the ring width index correlates to annual discharge at R = 0.67. Flow reconstruction indicates that the decades of highest (1820s, 1850s) and lowest (1830s, 1900s) flows all occurred prior to the instrumental record, revealing the value of an extended perspective. Cottonwood age distribution indicates that, like other western rivers, the rate of channel migration on the Yellowstone declined in the 20th century. However, the Yellowstone uniquely lacks mainstem dams and substantial water extractions, revealing the occurrence of hydrological and ecological change on a relatively natural river. Our study reach is the most geomorphically active of the entire 1100 km river between Yellowstone National Park and the Missouri River, but cottonwood age distribution reveals that trees that have established since the 1960s are underrepresented. The lack of younger cottonwood trees is likely caused by a decline in river migration rates, which may be attributed to i) climate change directly leading to a decline in fluvial processes driving river migration, ii) a decoupling in the timing of the snowmelt runoff receding limb and cottonwood seed release, or iii) both. Even on this relatively unmodified river, it appears that