Epidemics in adaptive networks with community structure

NASA Astrophysics Data System (ADS)

Shaw, Leah; Tunc, Ilker

2010-03-01

Models for epidemic spread on static social networks do not account for changes in individuals' social interactions. Recent studies of adaptive networks have modeled avoidance behavior, as non-infected individuals try to avoid contact with infectives. Such models have not generally included realistic social structure. Here we study epidemic spread on an adaptive network with community structure. We model the effect of heterogeneous communities on infection levels and epidemic extinction. We also show how an epidemic can alter the community structure.

Failures no More: The Radical Consequences of Realistic Stellar Feedback for Dwarf Galaxies, the Milky Way, and Reionization

NASA Astrophysics Data System (ADS)

Hopkins, Philip F.

2016-06-01

Many of the most fundamental unsolved questions in star and galaxy formation revolve around star formation and "feedback" from massive stars, in-extricably linking galaxy formation and stellar evolution. I'll present simulations with un-precedented resolution of Milky-Way (MW) mass galaxies, followed cosmologically to redshift zero. For the first time, these simulations resolve the internal structure of small dwarf satellites around a MW-like host, with detailed models for stellar evolution including radiation pressure, supernovae, stellar winds, and photo-heating. I'll show that, without fine-tuning, these feedback processes naturally resolve the "missing satellites," "too big to fail," and "cusp-core" problems, and produce realistic galaxy populations. At high redshifts however, the realistic ISM structure predicted, coupled to standard stellar population models, naively leads to the prediction that only ~1-2% of ionizing photons can ever escape galaxies, insufficient to ionize the Universe. But these models assume all stars are single: if we account for binary evolution, the escape fraction increases dramatically to ~20% for the small, low-metallicity galaxies believed to ionize the Universe.

Electron percolation in realistic models of carbon nanotube networks

NASA Astrophysics Data System (ADS)

Simoneau, Louis-Philippe; Villeneuve, Jérémie; Rochefort, Alain

2015-09-01

The influence of penetrable and curved carbon nanotubes (CNT) on the charge percolation in three-dimensional disordered CNT networks have been studied with Monte-Carlo simulations. By considering carbon nanotubes as solid objects but where the overlap between their electron cloud can be controlled, we observed that the structural characteristics of networks containing lower aspect ratio CNT are highly sensitive to the degree of penetration between crossed nanotubes. Following our efficient strategy to displace CNT to different positions to create more realistic statistical models, we conclude that the connectivity between objects increases with the hard-core/soft-shell radii ratio. In contrast, the presence of curved CNT in the random networks leads to an increasing percolation threshold and to a decreasing electrical conductivity at saturation. The waviness of CNT decreases the effective distance between the nanotube extremities, hence reducing their connectivity and degrading their electrical properties. We present the results of our simulation in terms of thickness of the CNT network from which simple structural parameters such as the volume fraction or the carbon nanotube density can be accurately evaluated with our more realistic models.

Facial animation on an anatomy-based hierarchical face model

NASA Astrophysics Data System (ADS)

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

2003-04-01

In this paper we propose a new hierarchical 3D facial model based on anatomical knowledge that provides high fidelity for realistic facial expression animation. Like real human face, the facial model has a hierarchical biomechanical structure, incorporating a physically-based approximation to facial skin tissue, a set of anatomically-motivated facial muscle actuators and underlying skull structure. The deformable skin model has multi-layer structure to approximate different types of soft tissue. It takes into account the nonlinear stress-strain relationship of the skin and the fact that soft tissue is almost incompressible. Different types of muscle models have been developed to simulate distribution of the muscle force on the skin due to muscle contraction. By the presence of the skull model, our facial model takes advantage of both more accurate facial deformation and the consideration of facial anatomy during the interactive definition of facial muscles. Under the muscular force, the deformation of the facial skin is evaluated using numerical integration of the governing dynamic equations. The dynamic facial animation algorithm runs at interactive rate with flexible and realistic facial expressions to be generated.

Flow-structure Interaction Modeling of a Fish Caudal Fin during Steady Swimming

NASA Astrophysics Data System (ADS)

Liu, Geng; Geng, Biao; Zheng, Xudong; Xue, Qian; Dong, Haibo

2017-11-01

It's widely thought that the flexibilities of fish fins play critical roles in propulsive performance enhancement (such as thrust augment and efficiency improvement) in nature. In order to explore the formation mechanisms of the fish fin's flexible morphing and its hydrodynamic benefits as well, a high-fidelity flow-structure/membrane interaction modeling of the fish caudal fin is conducted in this work. Following the realistic configuration of the fish caudal fin, a thin membrane supported by a series of beams is constructed. The material properties of the membrane and the beams are reversely determined by the realistic fin morphing obtained from the high-speed videos and the high fidelity flow-structure interaction simulations. With the accurate material property, we investigate the interplay between structure, kinematics and fluid flow in caudal fin propulsion. Detailed analyses on the relationship between the flexural stiffness, fin morphing patterns, hydrodynamic forces and vortex dynamics are then conducted.

Comparisons of Multilevel Modeling and Structural Equation Modeling Approaches to Actor-Partner Interdependence Model.

PubMed

Hong, Sehee; Kim, Soyoung

2018-01-01

There are basically two modeling approaches applicable to analyzing an actor-partner interdependence model: the multilevel modeling (hierarchical linear model) and the structural equation modeling. This article explains how to use these two models in analyzing an actor-partner interdependence model and how these two approaches work differently. As an empirical example, marital conflict data were used to analyze an actor-partner interdependence model. The multilevel modeling and the structural equation modeling produced virtually identical estimates for a basic model. However, the structural equation modeling approach allowed more realistic assumptions on measurement errors and factor loadings, rendering better model fit indices.

Structural versus dynamical origins of mean-field behavior in a self-organized critical model of neuronal avalanches

NASA Astrophysics Data System (ADS)

Moosavi, S. Amin; Montakhab, Afshin

2015-11-01

Critical dynamics of cortical neurons have been intensively studied over the past decade. Neuronal avalanches provide the main experimental as well as theoretical tools to consider criticality in such systems. Experimental studies show that critical neuronal avalanches show mean-field behavior. There are structural as well as recently proposed [Phys. Rev. E 89, 052139 (2014), 10.1103/PhysRevE.89.052139] dynamical mechanisms that can lead to mean-field behavior. In this work we consider a simple model of neuronal dynamics based on threshold self-organized critical models with synaptic noise. We investigate the role of high-average connectivity, random long-range connections, as well as synaptic noise in achieving mean-field behavior. We employ finite-size scaling in order to extract critical exponents with good accuracy. We conclude that relevant structural mechanisms responsible for mean-field behavior cannot be justified in realistic models of the cortex. However, strong dynamical noise, which can have realistic justifications, always leads to mean-field behavior regardless of the underlying structure. Our work provides a different (dynamical) origin than the conventionally accepted (structural) mechanisms for mean-field behavior in neuronal avalanches.

Stage-Structured Population Dynamics of AEDES AEGYPTI

NASA Astrophysics Data System (ADS)

Yusoff, Nuraini; Budin, Harun; Ismail, Salemah

Aedes aegypti is the main vector in the transmission of dengue fever, a vector-borne disease affecting world population living in tropical and sub-tropical countries. Better understanding of the dynamics of its population growth will help in the efforts of controlling the spread of this disease. In looking at the population dynamics of Aedes aegypti, this paper explored the stage-structured modeling of the population growth of the mosquito using the matrix population model. The life cycle of the mosquito was divided into five stages: eggs, larvae, pupae, adult1 and adult2. Developmental rates were obtained for the average Malaysian temperature and these were used in constructing the transition matrix for the matrix model. The model, which was based only on temperature, projected that the population of Aedes aegypti will blow up with time, which is not realistic. For further work, other factors need to be taken into account to obtain a more realistic result.

Application of an Elastic-Plastic Methodology to Structural Integrity Evaluation,

DTIC Science & Technology

The elastic plastic fracture mechanics ( EPFM ) technology has advanced to the point where it can be used to make a realistic assessment of the...concepts of EPFM into a structural stability evaluation. The structure is modeled as a cracked test specimen either in series or parallel with a spring

Modeling of ultrasonic wave propagation in composite laminates with realistic discontinuity representation.

PubMed

Zelenyak, Andreea-Manuela; Schorer, Nora; Sause, Markus G R

2018-02-01

This paper presents a method for embedding realistic defect geometries of a fiber reinforced material in a finite element modeling environment in order to simulate active ultrasonic inspection. When ultrasonic inspection is used experimentally to investigate the presence of defects in composite materials, the microscopic defect geometry may cause signal characteristics that are difficult to interpret. Hence, modeling of this interaction is key to improve our understanding and way of interpreting the acquired ultrasonic signals. To model the true interaction of the ultrasonic wave field with such defect structures as pores, cracks or delamination, a realistic three dimensional geometry reconstruction is required. We present a 3D-image based reconstruction process which converts computed tomography data in adequate surface representations ready to be embedded for processing with finite element methods. Subsequent modeling using these geometries uses a multi-scale and multi-physics simulation approach which results in quantitative A-Scan ultrasonic signals which can be directly compared with experimental signals. Therefore, besides the properties of the composite material, a full transducer implementation, piezoelectric conversion and simultaneous modeling of the attached circuit is applied. Comparison between simulated and experimental signals provides very good agreement in electrical voltage amplitude and the signal arrival time and thus validates the proposed modeling approach. Simulating ultrasound wave propagation in a medium with a realistic shape of the geometry clearly shows a difference in how the disturbance of the waves takes place and finally allows more realistic modeling of A-scans. Copyright © 2017 Elsevier B.V. All rights reserved.

Corrosion Prediction with Parallel Finite Element Modeling for Coupled Hygro-Chemo Transport into Concrete under Chloride-Rich Environment

PubMed Central

Na, Okpin; Cai, Xiao-Chuan; Xi, Yunping

2017-01-01

The prediction of the chloride-induced corrosion is very important because of the durable life of concrete structure. To simulate more realistic durability performance of concrete structures, complex scientific methods and more accurate material models are needed. In order to predict the robust results of corrosion initiation time and to describe the thin layer from concrete surface to reinforcement, a large number of fine meshes are also used. The purpose of this study is to suggest more realistic physical model regarding coupled hygro-chemo transport and to implement the model with parallel finite element algorithm. Furthermore, microclimate model with environmental humidity and seasonal temperature is adopted. As a result, the prediction model of chloride diffusion under unsaturated condition was developed with parallel algorithms and was applied to the existing bridge to validate the model with multi-boundary condition. As the number of processors increased, the computational time decreased until the number of processors became optimized. Then, the computational time increased because the communication time between the processors increased. The framework of present model can be extended to simulate the multi-species de-icing salts ingress into non-saturated concrete structures in future work. PMID:28772714

Large-scale shell-model study of the Sn isotopes

NASA Astrophysics Data System (ADS)

Osnes, Eivind; Engeland, Torgeir; Hjorth-Jensen, Morten

2015-05-01

We summarize the results of an extensive study of the structure of the Sn isotopes using a large shell-model space and effective interactions evaluated from realistic two-nucleon potentials. For a fuller account, see ref. [1].

A nonuniform popularity-similarity optimization (nPSO) model to efficiently generate realistic complex networks with communities

NASA Astrophysics Data System (ADS)

Muscoloni, Alessandro; Vittorio Cannistraci, Carlo

2018-05-01

The investigation of the hidden metric space behind complex network topologies is a fervid topic in current network science and the hyperbolic space is one of the most studied, because it seems associated to the structural organization of many real complex systems. The popularity-similarity-optimization (PSO) model simulates how random geometric graphs grow in the hyperbolic space, generating realistic networks with clustering, small-worldness, scale-freeness and rich-clubness. However, it misses to reproduce an important feature of real complex networks, which is the community organization. The geometrical-preferential-attachment (GPA) model was recently developed in order to confer to the PSO also a soft community structure, which is obtained by forcing different angular regions of the hyperbolic disk to have a variable level of attractiveness. However, the number and size of the communities cannot be explicitly controlled in the GPA, which is a clear limitation for real applications. Here, we introduce the nonuniform PSO (nPSO) model. Differently from GPA, the nPSO generates synthetic networks in the hyperbolic space where heterogeneous angular node attractiveness is forced by sampling the angular coordinates from a tailored nonuniform probability distribution (for instance a mixture of Gaussians). The nPSO differs from GPA in other three aspects: it allows one to explicitly fix the number and size of communities; it allows one to tune their mixing property by means of the network temperature; it is efficient to generate networks with high clustering. Several tests on the detectability of the community structure in nPSO synthetic networks and wide investigations on their structural properties confirm that the nPSO is a valid and efficient model to generate realistic complex networks with communities.

Assessing Vocational Interests in the Basque Country Using Paired Comparison Design

ERIC Educational Resources Information Center

Elosua, Paula

2007-01-01

This article proposes the Thurstonian paired comparison model to assess vocational preferences and uses this approach to evaluate the Realistic, Investigative, Artistic, Social, Enterprise, and Conventional (RIASEC) model in the Basque Country (Spain). First, one unrestricted model is estimated in the Structural Equation Modelling framework using…

ODEion--a software module for structural identification of ordinary differential equations.

PubMed

Gennemark, Peter; Wedelin, Dag

2014-02-01

In the systems biology field, algorithms for structural identification of ordinary differential equations (ODEs) have mainly focused on fixed model spaces like S-systems and/or on methods that require sufficiently good data so that derivatives can be accurately estimated. There is therefore a lack of methods and software that can handle more general models and realistic data. We present ODEion, a software module for structural identification of ODEs. Main characteristic features of the software are: • The model space is defined by arbitrary user-defined functions that can be nonlinear in both variables and parameters, such as for example chemical rate reactions. • ODEion implements computationally efficient algorithms that have been shown to efficiently handle sparse and noisy data. It can run a range of realistic problems that previously required a supercomputer. • ODEion is easy to use and provides SBML output. We describe the mathematical problem, the ODEion system itself, and provide several examples of how the system can be used. Available at: http://www.odeidentification.org.

Age- and bite-structured models for vector-borne diseases.

PubMed

Rock, K S; Wood, D A; Keeling, M J

2015-09-01

The biology and behaviour of biting insects is a vitally important aspect in the spread of vector-borne diseases. This paper aims to determine, through the use of mathematical models, what effect incorporating vector senescence and realistic feeding patterns has on disease. A novel model is developed to enable the effects of age- and bite-structure to be examined in detail. This original PDE framework extends previous age-structured models into a further dimension to give a new insight into the role of vector biting and its interaction with vector mortality and spread of disease. Through the PDE model, the roles of the vector death and bite rates are examined in a way which is impossible under the traditional ODE formulation. It is demonstrated that incorporating more realistic functions for vector biting and mortality in a model may give rise to different dynamics than those seen under a more simple ODE formulation. The numerical results indicate that the efficacy of control methods that increase vector mortality may not be as great as predicted under a standard host-vector model, whereas other controls including treatment of humans may be more effective than previously thought. Copyright © 2015 The Authors. Published by Elsevier B.V. All rights reserved.

Realistic neurons can compute the operations needed by quantum probability theory and other vector symbolic architectures.

PubMed

Stewart, Terrence C; Eliasmith, Chris

2013-06-01

Quantum probability (QP) theory can be seen as a type of vector symbolic architecture (VSA): mental states are vectors storing structured information and manipulated using algebraic operations. Furthermore, the operations needed by QP match those in other VSAs. This allows existing biologically realistic neural models to be adapted to provide a mechanistic explanation of the cognitive phenomena described in the target article by Pothos & Busemeyer (P&B).

An environment-dependent semi-empirical tight binding model suitable for electron transport in bulk metals, metal alloys, metallic interfaces, and metallic nanostructures. I. Model and validation

NASA Astrophysics Data System (ADS)

Hegde, Ganesh; Povolotskyi, Michael; Kubis, Tillmann; Boykin, Timothy; Klimeck, Gerhard

2014-03-01

Semi-empirical Tight Binding (TB) is known to be a scalable and accurate atomistic representation for electron transport for realistically extended nano-scaled semiconductor devices that might contain millions of atoms. In this paper, an environment-aware and transferable TB model suitable for electronic structure and transport simulations in technologically relevant metals, metallic alloys, metal nanostructures, and metallic interface systems are described. Part I of this paper describes the development and validation of the new TB model. The new model incorporates intra-atomic diagonal and off-diagonal elements for implicit self-consistency and greater transferability across bonding environments. The dependence of the on-site energies on strain has been obtained by appealing to the Moments Theorem that links closed electron paths in the system to energy moments of angular momentum resolved local density of states obtained ab initio. The model matches self-consistent density functional theory electronic structure results for bulk face centered cubic metals with and without strain, metallic alloys, metallic interfaces, and metallic nanostructures with high accuracy and can be used in predictive electronic structure and transport problems in metallic systems at realistically extended length scales.

Multi-scale simulations of apatite-collagen composites: from molecules to materials

NASA Astrophysics Data System (ADS)

Zahn, Dirk

2017-03-01

We review scale-bridging simulation studies for the exploration of atomicto-meso scale processes that account for the unique structure and mechanic properties of apatite-protein composites. As the atomic structure and composition of such complex biocomposites only partially is known, the first part (i) of our modelling studies is dedicated to realistic crystal nucleation scenarios of inorganic-organic composites. Starting from the association of single ions, recent insights range from the mechanisms of motif formation, ripening reactions and the self-organization of nanocrystals, including their interplay with growth-controlling molecular moieties. On this basis, (ii) reliable building rules for unprejudiced scale-up models can be derived to model bulk materials. This is exemplified for (enamel-like) apatite-protein composites, encompassing up to 106 atom models to provide a realistic account of the 10 nm length scale, whilst model coarsening is used to reach μm length scales. On this basis, a series of deformation and fracture simulation studies were performed and helped to rationalize biocomposite hardness, plasticity, toughness, self-healing and fracture mechanisms. Complementing experimental work, these modelling studies provide particularly detailed insights into the relation of hierarchical composite structure and favorable mechanical properties.

Survey of Approaches to Generate Realistic Synthetic Graphs

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

Lim, Seung-Hwan; Lee, Sangkeun; Powers, Sarah S

A graph is a flexible data structure that can represent relationships between entities. As with other data analysis tasks, the use of realistic graphs is critical to obtaining valid research results. Unfortunately, using the actual ("real-world") graphs for research and new algorithm development is difficult due to the presence of sensitive information in the data or due to the scale of data. This results in practitioners developing algorithms and systems that employ synthetic graphs instead of real-world graphs. Generating realistic synthetic graphs that provide reliable statistical confidence to algorithmic analysis and system evaluation involves addressing technical hurdles in a broadmore » set of areas. This report surveys the state of the art in approaches to generate realistic graphs that are derived from fitted graph models on real-world graphs.« less

Modelling non-Euclidean movement and landscape connectivity in highly structured ecological networks

USGS Publications Warehouse

Sutherland, Christopher; Fuller, Angela K.; Royle, J. Andrew

2015-01-01

The ecological distance SCR model uses spatially indexed capture-recapture data to estimate how activity patterns are influenced by landscape structure. As well as reducing bias in estimates of abundance, this approach provides biologically realistic representations of home range geometry, and direct information about species-landscape interactions. The incorporation of both structural (landscape) and functional (movement) components of connectivity provides a direct measure of species-specific landscape connectivity.

Realistic full wave modeling of focal plane array pixels

DOE PAGES

Campione, Salvatore; Warne, Larry K.; Jorgenson, Roy E.; ...

2017-11-01

Here, we investigate full-wave simulations of realistic implementations of multifunctional nanoantenna enabled detectors (NEDs). We focus on a 2x2 pixelated array structure that supports two wavelengths of operation. We design each resonating structure independently using full-wave simulations with periodic boundary conditions mimicking the whole infinite array. We then construct a supercell made of a 2x2 pixelated array with periodic boundary conditions mimicking the full NED; in this case, however, each pixel comprises 10-20 antennas per side. In this way, the cross-talk between contiguous pixels is accounted for in our simulations. We observe that, even though there are finite extent effects,more » the pixels work as designed, each responding at the respective wavelength of operation. This allows us to stress that realistic simulations of multifunctional NEDs need to be performed to verify the design functionality by taking into account finite extent and cross-talk effects.« less

Dynamics of leaf gas exchange, xylem and phloem transport, water potential and carbohydrate concentration in a realistic 3-D model tree crown.

PubMed

Nikinmaa, Eero; Sievänen, Risto; Hölttä, Teemu

2014-09-01

Tree models simulate productivity using general gas exchange responses and structural relationships, but they rarely check whether leaf gas exchange and resulting water and assimilate transport and driving pressure gradients remain within acceptable physical boundaries. This study presents an implementation of the cohesion-tension theory of xylem transport and the Münch hypothesis of phloem transport in a realistic 3-D tree structure and assesses the gas exchange and transport dynamics. A mechanistic model of xylem and phloem transport was used, together with a tested leaf assimilation and transpiration model in a realistic tree architecture to simulate leaf gas exchange and water and carbohydrate transport within an 8-year-old Scots pine tree. The model solved the dynamics of the amounts of water and sucrose solute in the xylem, cambium and phloem using a fine-grained mesh with a system of coupled ordinary differential equations. The simulations predicted the observed patterns of pressure gradients and sugar concentration. Diurnal variation of environmental conditions influenced tree-level gradients in turgor pressure and sugar concentration, which are important drivers of carbon allocation. The results and between-shoot variation were sensitive to structural and functional parameters such as tree-level scaling of conduit size and phloem unloading. Linking whole-tree-level water and assimilate transport, gas exchange and sink activity opens a new avenue for plant studies, as features that are difficult to measure can be studied dynamically with the model. Tree-level responses to local and external conditions can be tested, thus making the approach described here a good test-bench for studies of whole-tree physiology.

Probabilistic Fatigue Damage Prognosis Using a Surrogate Model Trained Via 3D Finite Element Analysis

NASA Technical Reports Server (NTRS)

Leser, Patrick E.; Hochhalter, Jacob D.; Newman, John A.; Leser, William P.; Warner, James E.; Wawrzynek, Paul A.; Yuan, Fuh-Gwo

2015-01-01

Utilizing inverse uncertainty quantification techniques, structural health monitoring can be integrated with damage progression models to form probabilistic predictions of a structure's remaining useful life. However, damage evolution in realistic structures is physically complex. Accurately representing this behavior requires high-fidelity models which are typically computationally prohibitive. In the present work, a high-fidelity finite element model is represented by a surrogate model, reducing computation times. The new approach is used with damage diagnosis data to form a probabilistic prediction of remaining useful life for a test specimen under mixed-mode conditions.

Imprints of dark energy on cosmic structure formation - I. Realistic quintessence models and the non-linear matter power spectrum

NASA Astrophysics Data System (ADS)

Alimi, J.-M.; Füzfa, A.; Boucher, V.; Rasera, Y.; Courtin, J.; Corasaniti, P.-S.

2010-01-01

Quintessence has been proposed to account for dark energy (DE) in the Universe. This component causes a typical modification of the background cosmic expansion, which, in addition to its clustering properties, can leave a potentially distinctive signature on large-scale structures. Many previous studies have investigated this topic, particularly in relation to the non-linear regime of structure formation. However, no careful pre-selection of viable quintessence models with high precision cosmological data was performed. Here we show that this has led to a misinterpretation (and underestimation) of the imprint of quintessence on the distribution of large-scale structures. To this purpose, we perform a likelihood analysis of the combined Supernova Ia UNION data set and Wilkinson Microwave Anisotropy Probe 5-yr data to identify realistic quintessence models. These are specified by different model parameter values, but still statistically indistinguishable from the vanilla Λ cold dark matter (ΛCDM). Differences are especially manifest in the predicted amplitude and shape of the linear matter power spectrum though these remain within the uncertainties of the Sloan Digital Sky Survey data. We use these models as a benchmark for studying the clustering properties of dark matter haloes by performing a series of high-resolution N-body simulations. In this first paper, we specifically focus on the non-linear matter power spectrum. We find that realistic quintessence models allow for relevant differences of the dark matter distribution with respect to the ΛCDM scenario well into the non-linear regime, with deviations of up to 40 per cent in the non-linear power spectrum. Such differences are shown to depend on the nature of DE, as well as the scale and epoch considered. At small scales (k ~ 1-5hMpc-1, depending on the redshift), the structure formation process is about 20 per cent more efficient than in ΛCDM. We show that these imprints are a specific record of the cosmic structure formation history in DE cosmologies and therefore cannot be accounted for in standard fitting functions of the non-linear matter power spectrum.

Transferable coarse-grained model for perfluorosulfonic acid polymer membranes

NASA Astrophysics Data System (ADS)

Kuo, An-Tsung; Okazaki, Susumu; Shinoda, Wataru

2017-09-01

Perfluorosulfonic acid (PFSA) polymer membranes are widely used as proton exchange membranes. Because the structure of the aqueous domain within the PFSA membrane is expected to directly influence proton conductance, many coarse-grained (CG) simulation studies have been performed to investigate the membrane morphology; these studies mostly used phenomenological models, such as dissipative particle dynamics. However, a chemically accurate CG model is required to investigate the morphology in realistic membranes and to provide a concrete molecular design. Here, we attempt to construct a predictive CG model for the structure and morphology of PFSA membranes that is compatible with the Sinoda-DeVane-Klein (SDK) CG water model [Shinoda et al., Mol. Simul. 33, 27 (2007)]. First, we extended the parameter set for the SDK CG force field to examine a hydrated PFSA membrane based on thermodynamic and structural data from experiments and all-atom (AA) molecular dynamics (MD) simulations. However, a noticeable degradation of the morphology motivated us to improve the structural properties by using the iterative Boltzmann inversion (IBI) approach. Thus, we explored a possible combination of the SDK and IBI approaches to describe the nonbonded interaction. The hybrid SDK/IBI model improved the structural issues of SDK, showing a better agreement with AA-MD in the radial distribution functions. The hybrid SDK/IBI model was determined to reasonably reproduce both the thermodynamic and structural properties of the PFSA membrane for all examined water contents. In addition, the model demonstrated good transferability and has considerable potential for application to realistic long-chained PFSA membranes.

EIT intensity noise spectroscopy power-broadening and level structure

NASA Astrophysics Data System (ADS)

Snider, Charles; Crescimanno, Michael; Oleary, Shannon

2011-05-01

One particularly interesting (and potentially technologically useful) characteristic of EIT coherence as viewed through intensity noise spectroscopy is its power-broadening resistant features. We detail a connection between the power broadening behavior and the underlying level structure by solving a more realistic quantum optics scenario modeled on recent experiments.

Increased persistence via asynchrony in oscillating ecological populations with long-range interaction

NASA Astrophysics Data System (ADS)

Gupta, Anubhav; Banerjee, Tanmoy; Dutta, Partha Sharathi

2017-10-01

Understanding the influence of the structure of a dispersal network on the species persistence and modeling a realistic species dispersal in nature are two central issues in spatial ecology. A realistic dispersal structure which favors the persistence of interacting ecological systems was studied [M. D. Holland and A. Hastings, Nature (London) 456, 792 (2008), 10.1038/nature07395], where it was shown that a randomization of the structure of a dispersal network in a metapopulation model of prey and predator increases the species persistence via clustering, prolonged transient dynamics, and amplitudes of population fluctuations. In this paper, by contrast, we show that a deterministic network topology in a metapopulation can also favor asynchrony and prolonged transient dynamics if species dispersal obeys a long-range interaction governed by a distance-dependent power law. To explore the effects of power-law coupling, we take a realistic ecological model, namely, the Rosenzweig-MacArthur model in each patch (node) of the network of oscillators, and show that the coupled system is driven from synchrony to asynchrony with an increase in the power-law exponent. Moreover, to understand the relationship between species persistence and variations in power-law exponent, we compute a correlation coefficient to characterize cluster formation, a synchrony order parameter, and median predator amplitude. We further show that smaller metapopulations with fewer patches are more vulnerable to extinction as compared to larger metapopulations with a higher number of patches. We believe that the present work improves our understanding of the interconnection between the random network and the deterministic network in theoretical ecology.

Modeling socio-demography to capture tuberculosis transmission dynamics in a low burden setting

PubMed Central

Ajelli, Marco; Yang, Zhenhua; Merler, Stefano; Furlanello, Cesare; Kirschner, Denise

2011-01-01

Evidence of preferential mixing through selected social routes has been suggested for the transmission of tuberculosis (TB) infection in low burden settings. A realistic modelization of these contact routes is needed to appropriately assess the impact of individually targeted control strategies, such as contact network investigation of index cases and treatment of latent TB infection (LTBI). We propose an age-structured, socio-demographic individual based model (IBM) with a realistic, time-evolving structure of preferential contacts in a population. In particular, transmission within households, schools and work-places, together with a component of casual, distance-dependent contacts are considered. We also compared the model against two other formulations having no social structure of contacts (homogeneous mixing transmission): a baseline deterministic model without age structure and an age-structured IBM. The socio-demographic IBM better fitted recent longitudinal data on TB epidemiology in Arkansas, USA, which serves as an example of a low burden setting. Inclusion of age structure in the model proved fundamental to capturing actual proportions of reactivated TB cases (as opposed to recently transmitted) as well as profiling age-group specific incidence. The socio-demographic structure additionally provides a prediction of TB transmission rates (the rate of infection in household contacts and the rate of secondary cases in household and workplace contacts). These results suggest that the socio-demographic IBM is an optimal choice for evaluating current control strategies, including contact network investigation of index cases, and the simulation of alternative scenarios, particularly for TB eradication targets. PMID:21906603

3D Realistic Radiative Hydrodynamic Modeling of a Moderate-Mass Star: Effects of Rotation

NASA Astrophysics Data System (ADS)

Kitiashvili, Irina; Kosovichev, Alexander G.; Mansour, Nagi N.; Wray, Alan A.

2018-01-01

Recent progress in stellar observations opens new perspectives in understanding stellar evolution and structure. However, complex interactions in the turbulent radiating plasma together with effects of magnetic fields and rotation make inferences of stellar properties uncertain. The standard 1D mixing-length-based evolutionary models are not able to capture many physical processes of stellar interior dynamics, but they provide an initial approximation of the stellar structure that can be used to initialize 3D time-dependent radiative hydrodynamics simulations, based on first physical principles, that take into account the effects of turbulence, radiation, and others. In this presentation we will show simulation results from a 3D realistic modeling of an F-type main-sequence star with mass 1.47 Msun, in which the computational domain includes the upper layers of the radiation zone, the entire convection zone, and the photosphere. The simulation results provide new insight into the formation and properties of the convective overshoot region, the dynamics of the near-surface, highly turbulent layer, the structure and dynamics of granulation, and the excitation of acoustic and gravity oscillations. We will discuss the thermodynamic structure, oscillations, and effects of rotation on the dynamics of the star across these layers.

Simulation Studies of the Effect of Forest Spatial Structure on InSAR Signature

NASA Technical Reports Server (NTRS)

Sun, Guoqing; Liu, Dawei; Ranson, K. Jon; Koetz, Benjamin

2007-01-01

The height of scattering phase retrieved from InSAR data is considered being correlated with the tree height and the spatial structure of the forest stand. Though some researchers have used simple backscattering models to estimate tree height from the height of scattering center, the effect of forest spatial structure on InSAR data is not well understood yet. A three-dimensional coherent radar backscattering model for forest canopies based on realistic three-dimensional scene was used to investigate the effect in this paper. The realistic spatial structure of forest canopies was established either by field measurements (stem map) or through use of forest growth model. Field measurements or a forest growth model parameterized using local environmental parameters provides information of forest species composition and tree sizes in certain growth phases. A fractal tree model (L-system) was used to simulate individual 3- D tree structure of different ages or heights. Trees were positioned in a stand in certain patterns resulting in a 3-D medium of discrete scatterers. The radar coherent backscatter model took the 3-D forest scene as input and simulates the coherent radar backscattering signature. Interferometric SAR images of 3D scenes were simulated and heights of scattering phase centers were estimated from the simulated InSAR data. The effects of tree height, crown cover, crown depth, and the spatial distribution patterns of trees on the scattering phase center were analyzed. The results will be presented in the paper.

Realistic Simulations of Coronagraphic Observations with WFIRST

NASA Astrophysics Data System (ADS)

Rizzo, Maxime; Zimmerman, Neil; Roberge, Aki; Lincowski, Andrew; Arney, Giada; Stark, Chris; Jansen, Tiffany; Turnbull, Margaret; WFIRST Science Investigation Team (Turnbull)

2018-01-01

We present a framework to simulate observing scenarios with the WFIRST Coronagraphic Instrument (CGI). The Coronagraph and Rapid Imaging Spectrograph in Python (crispy) is an open-source package that can be used to create CGI data products for analysis and development of post-processing routines. The software convolves time-varying coronagraphic PSFs with realistic astrophysical scenes which contain a planetary architecture, a consistent dust structure, and a background field composed of stars and galaxies. The focal plane can be read out by a WFIRST electron-multiplying CCD model directly, or passed through a WFIRST integral field spectrograph model first. Several elementary post-processing routines are provided as part of the package.

Locomotive crashworthiness research : modeling, simulation, and validation

DOT National Transportation Integrated Search

2001-07-01

A technique was developed to realistically simulate the dynamic, nonlinear structural behavior of moving rail vehicles and objects struck during a collision. A new approach considered the interdependence of the many vehicles connected in typical rail...

Comparison of temporal and spectral scattering methods using acoustically large breast models derived from magnetic resonance images.

PubMed

Hesford, Andrew J; Tillett, Jason C; Astheimer, Jeffrey P; Waag, Robert C

2014-08-01

Accurate and efficient modeling of ultrasound propagation through realistic tissue models is important to many aspects of clinical ultrasound imaging. Simplified problems with known solutions are often used to study and validate numerical methods. Greater confidence in a time-domain k-space method and a frequency-domain fast multipole method is established in this paper by analyzing results for realistic models of the human breast. Models of breast tissue were produced by segmenting magnetic resonance images of ex vivo specimens into seven distinct tissue types. After confirming with histologic analysis by pathologists that the model structures mimicked in vivo breast, the tissue types were mapped to variations in sound speed and acoustic absorption. Calculations of acoustic scattering by the resulting model were performed on massively parallel supercomputer clusters using parallel implementations of the k-space method and the fast multipole method. The efficient use of these resources was confirmed by parallel efficiency and scalability studies using large-scale, realistic tissue models. Comparisons between the temporal and spectral results were performed in representative planes by Fourier transforming the temporal results. An RMS field error less than 3% throughout the model volume confirms the accuracy of the methods for modeling ultrasound propagation through human breast.

A 4DCT imaging-based breathing lung model with relative hysteresis

PubMed Central

Miyawaki, Shinjiro; Choi, Sanghun; Hoffman, Eric A.; Lin, Ching-Long

2016-01-01

To reproduce realistic airway motion and airflow, the authors developed a deforming lung computational fluid dynamics (CFD) model based on four-dimensional (4D, space and time) dynamic computed tomography (CT) images. A total of 13 time points within controlled tidal volume respiration were used to account for realistic and irregular lung motion in human volunteers. Because of the irregular motion of 4DCT-based airways, we identified an optimal interpolation method for airway surface deformation during respiration, and implemented a computational solid mechanics-based moving mesh algorithm to produce smooth deforming airway mesh. In addition, we developed physiologically realistic airflow boundary conditions for both models based on multiple images and a single image. Furthermore, we examined simplified models based on one or two dynamic or static images. By comparing these simplified models with the model based on 13 dynamic images, we investigated the effects of relative hysteresis of lung structure with respect to lung volume, lung deformation, and imaging methods, i.e., dynamic vs. static scans, on CFD-predicted pressure drop. The effect of imaging method on pressure drop was 24 percentage points due to the differences in airflow distribution and airway geometry. PMID:28260811

A 4DCT imaging-based breathing lung model with relative hysteresis

NASA Astrophysics Data System (ADS)

Miyawaki, Shinjiro; Choi, Sanghun; Hoffman, Eric A.; Lin, Ching-Long

2016-12-01

To reproduce realistic airway motion and airflow, the authors developed a deforming lung computational fluid dynamics (CFD) model based on four-dimensional (4D, space and time) dynamic computed tomography (CT) images. A total of 13 time points within controlled tidal volume respiration were used to account for realistic and irregular lung motion in human volunteers. Because of the irregular motion of 4DCT-based airways, we identified an optimal interpolation method for airway surface deformation during respiration, and implemented a computational solid mechanics-based moving mesh algorithm to produce smooth deforming airway mesh. In addition, we developed physiologically realistic airflow boundary conditions for both models based on multiple images and a single image. Furthermore, we examined simplified models based on one or two dynamic or static images. By comparing these simplified models with the model based on 13 dynamic images, we investigated the effects of relative hysteresis of lung structure with respect to lung volume, lung deformation, and imaging methods, i.e., dynamic vs. static scans, on CFD-predicted pressure drop. The effect of imaging method on pressure drop was 24 percentage points due to the differences in airflow distribution and airway geometry.

Progress on Discrete Fracture Network models with implications on the predictions of permeability and flow channeling structure

NASA Astrophysics Data System (ADS)

Darcel, C.; Davy, P.; Le Goc, R.; Maillot, J.; Selroos, J. O.

2017-12-01

We present progress on Discrete Fracture Network (DFN) flow modeling, including realistic advanced DFN spatial structures and local fracture transmissivity properties, through an application to the Forsmark site in Sweden. DFN models are a framework to combine fracture datasets from different sources and scales and to interpolate them in combining statistical distributions and stereological relations. The resulting DFN upscaling function - size density distribution - is a model component key to extrapolating fracture size densities between data gaps, from borehole core up to site scale. Another important feature of DFN models lays in the spatial correlations between fractures, with still unevaluated consequences on flow predictions. Indeed, although common Poisson (i.e. spatially random) models are widely used, they do not reflect these geological evidences for more complex structures. To model them, we define a DFN growth process from kinematic rules for nucleation, growth and stopping conditions. It mimics in a simplified way the geological fracturing processes and produces DFN characteristics -both upscaling function and spatial correlations- fully consistent with field observations. DFN structures are first compared for constant transmissivities. Flow simulations for the kinematic and equivalent Poisson DFN models show striking differences: with the kinematic DFN, connectivity and permeability are significantly smaller, down to a difference of one order of magnitude, and flow is much more channelized. Further flow analyses are performed with more realistic transmissivity distribution conditions (sealed parts, relations to fracture sizes, orientations and in-situ stress field). The relative importance of the overall DFN structure in the final flow predictions is discussed.

Modelling Digital Thunder

ERIC Educational Resources Information Center

Blanco, Francesco; La Rocca, Paola; Petta, Catia; Riggi, Francesco

2009-01-01

An educational model simulation of the sound produced by lightning in the sky has been employed to demonstrate realistic signatures of thunder and its connection to the particular structure of the lightning channel. Algorithms used in the past have been revisited and implemented, making use of current computer techniques. The basic properties of…

The construction of ``realistic'' four-dimensional strings through orbifolds

NASA Astrophysics Data System (ADS)

Font, A.; Ibáñez, L. E.; Quevedo, F.; Sierra, A.

1990-02-01

We discuss the construction of "realistic" lower rank 4-dimensional strings, through symmetric orbifolds with background fields. We present Z 3 three-generation SU(3) × SU(2) × U(1) models as well as models incorporating a left-right SU(2) L × SU(2) R × U(1) B-L symmetry in which proton stability is automatically guaranteed. Conformal field theory selection rules are used to find the flat directions to all orders which lead to these low-rank models and to study the relevant Yukawa couplings. A hierarchical structure of quark-lepton masses appears naturally in some models. We also present a detailed study of the structure of the Z 3 × Z 3 orbifold including the generalized GSO projection, the effect of discrete torsion and the conformal field theory Yukawa coupling selection rules. All these points are illustrated with a three-generation Z 3 × Z 3 model. We have made an effort to write a self-contained presentation in order to make this material available to non-string experts interested in the phenomenological aspects of this theory.

The stability of coupled renewal-differential equations with econometric applications

NASA Technical Reports Server (NTRS)

Rhoten, R. P.; Aggarwal, J. K.

1969-01-01

Concepts and results are presented in the fields of mathematical modeling, economics, and stability analysis. A coupled renewal-differential equation structure is presented as a modeling form for systems possessing hereditary characteristics, and this structure is applied to a model of the Austrian theory of business cycles. For realistic conditions, the system is shown to have an infinite number of poles, and conditions are presented which are both necessary and sufficient for all poles to lie strictly in the left half plane.

Restricted diffusion in a model acinar labyrinth by NMR: Theoretical and numerical results

NASA Astrophysics Data System (ADS)

Grebenkov, D. S.; Guillot, G.; Sapoval, B.

2007-01-01

A branched geometrical structure of the mammal lungs is known to be crucial for rapid access of oxygen to blood. But an important pulmonary disease like emphysema results in partial destruction of the alveolar tissue and enlargement of the distal airspaces, which may reduce the total oxygen transfer. This effect has been intensively studied during the last decade by MRI of hyperpolarized gases like helium-3. The relation between geometry and signal attenuation remained obscure due to a lack of realistic geometrical model of the acinar morphology. In this paper, we use Monte Carlo simulations of restricted diffusion in a realistic model acinus to compute the signal attenuation in a diffusion-weighted NMR experiment. We demonstrate that this technique should be sensitive to destruction of the branched structure: partial removal of the interalveolar tissue creates loops in the tree-like acinar architecture that enhance diffusive motion and the consequent signal attenuation. The role of the local geometry and related practical applications are discussed.

Investigation of the effects of aeroelastic deformations on the radar cross section of aircraft

NASA Astrophysics Data System (ADS)

McKenzie, Samuel D.

1991-12-01

The effects of aeroelastic deformations on the radar cross section (RCS) of a T-38 trainer jet and a C-5A transport aircraft are examined and characterized. Realistic representations of structural wing deformations are obtained from a mechanical/computer aided design software package called NASTRAN. NASTRAN is used to evaluate the structural parameters of the aircraft as well as the restraints and loads associated with realistic flight conditions. Geometries for both the non-deformed and deformed airframes are obtained from the NASTRAN models and translated into RCS models. The RCS is analyzed using a numerical modeling code called the Radar Cross Section - Basic Scattering Code, version 2 which was developed at the Ohio State University and is based on the uniform geometric theory of diffraction. The code is used to analyze the effects of aeroelastic deformations on the RCS of the aircraft by comparing the computed RCS representing the deformed airframe to that of the non-deformed airframe and characterizing the differences between them.

Magnetic structure of the crust

NASA Technical Reports Server (NTRS)

Wasilewski, P.

1985-01-01

The bibuniqueness aspect of geophysical interpretation must be constrained by geological insight to limit the range of theoretically possible models. An additional step in depth understanding of the relationship between rock magnetization and geological circumstances on a grand scale is required. Views about crustal structure and the distribution of lithologies suggests a complex situation with lateral and vertical variability at all levels in the crust. Volcanic, plutonic, and metamorphic processes together with each of the observed anomalies. Important questions are addressed: (1) the location of the magnetic bottom; (2) whether the source is a discrete one or are certain parts of the crust cumulatively contributing to the overall magnetization; (3) if the anomaly to some recognizable surface expression is localized, how to arrive at a geologically realistic model incorporating magnetization contrasts which are realistic; (3) in the way the primary mineralogies are altered by metamorphism and the resulting magnetic contracts; (4) the effects of temperature and pressure on magnetization.

A bridge role metric model for nodes in software networks.

PubMed

Li, Bo; Feng, Yanli; Ge, Shiyu; Li, Dashe

2014-01-01

A bridge role metric model is put forward in this paper. Compared with previous metric models, our solution of a large-scale object-oriented software system as a complex network is inherently more realistic. To acquire nodes and links in an undirected network, a new model that presents the crucial connectivity of a module or the hub instead of only centrality as in previous metric models is presented. Two previous metric models are described for comparison. In addition, it is obvious that the fitting curve between the Bre results and degrees can well be fitted by a power law. The model represents many realistic characteristics of actual software structures, and a hydropower simulation system is taken as an example. This paper makes additional contributions to an accurate understanding of module design of software systems and is expected to be beneficial to software engineering practices.

A Bridge Role Metric Model for Nodes in Software Networks

PubMed Central

Li, Bo; Feng, Yanli; Ge, Shiyu; Li, Dashe

2014-01-01

A bridge role metric model is put forward in this paper. Compared with previous metric models, our solution of a large-scale object-oriented software system as a complex network is inherently more realistic. To acquire nodes and links in an undirected network, a new model that presents the crucial connectivity of a module or the hub instead of only centrality as in previous metric models is presented. Two previous metric models are described for comparison. In addition, it is obvious that the fitting curve between the results and degrees can well be fitted by a power law. The model represents many realistic characteristics of actual software structures, and a hydropower simulation system is taken as an example. This paper makes additional contributions to an accurate understanding of module design of software systems and is expected to be beneficial to software engineering practices. PMID:25364938

A statistical approach to quasi-extinction forecasting.

PubMed

Holmes, Elizabeth Eli; Sabo, John L; Viscido, Steven Vincent; Fagan, William Fredric

2007-12-01

Forecasting population decline to a certain critical threshold (the quasi-extinction risk) is one of the central objectives of population viability analysis (PVA), and such predictions figure prominently in the decisions of major conservation organizations. In this paper, we argue that accurate forecasting of a population's quasi-extinction risk does not necessarily require knowledge of the underlying biological mechanisms. Because of the stochastic and multiplicative nature of population growth, the ensemble behaviour of population trajectories converges to common statistical forms across a wide variety of stochastic population processes. This paper provides a theoretical basis for this argument. We show that the quasi-extinction surfaces of a variety of complex stochastic population processes (including age-structured, density-dependent and spatially structured populations) can be modelled by a simple stochastic approximation: the stochastic exponential growth process overlaid with Gaussian errors. Using simulated and real data, we show that this model can be estimated with 20-30 years of data and can provide relatively unbiased quasi-extinction risk with confidence intervals considerably smaller than (0,1). This was found to be true even for simulated data derived from some of the noisiest population processes (density-dependent feedback, species interactions and strong age-structure cycling). A key advantage of statistical models is that their parameters and the uncertainty of those parameters can be estimated from time series data using standard statistical methods. In contrast for most species of conservation concern, biologically realistic models must often be specified rather than estimated because of the limited data available for all the various parameters. Biologically realistic models will always have a prominent place in PVA for evaluating specific management options which affect a single segment of a population, a single demographic rate, or different geographic areas. However, for forecasting quasi-extinction risk, statistical models that are based on the convergent statistical properties of population processes offer many advantages over biologically realistic models.

Access to primary care for socio-economically disadvantaged older people in rural areas: exploring realist theory using structural equation modelling in a linked dataset.

PubMed

Ford, John A; Jones, Andy; Wong, Geoff; Clark, Allan; Porter, Tom; Steel, Nick

2018-06-19

Realist approaches seek to answer questions such as 'how?', 'why?', 'for whom?', 'in what circumstances?' and 'to what extent?' interventions 'work' using context-mechanism-outcome (CMO) configurations. Quantitative methods are not well-established in realist approaches, but structural equation modelling (SEM) may be useful to explore CMO configurations. Our aim was to assess the feasibility and appropriateness of SEM to explore CMO configurations and, if appropriate, make recommendations based on our access to primary care research. Our specific objectives were to map variables from two large population datasets to CMO configurations from our realist review looking at access to primary care, generate latent variables where needed, and use SEM to quantitatively test the CMO configurations. A linked dataset was created by merging individual patient data from the English Longitudinal Study of Ageing and practice data from the GP Patient Survey. Patients registered in rural practices and who were in the highest deprivation tertile were included. Three latent variables were defined using confirmatory factor analysis. SEM was used to explore the nine full CMOs. All models were estimated using robust maximum likelihoods and accounted for clustering at practice level. Ordinal variables were treated as continuous to ensure convergence. We successfully explored our CMO configurations, but analysis was limited because of data availability. Two hundred seventy-six participants were included. We found a statistically significant direct (context to outcome) or indirect effect (context to outcome via mechanism) for two of nine CMOs. The strongest association was between 'ease of getting through to the surgery' and 'being able to get an appointment' with an indirect mediated effect through convenience (proportion of the indirect effect of the total was 21%). Healthcare experience was not directly associated with getting an appointment, but there was a statistically significant indirect effect through convenience (53% mediated effect). Model fit indices showed adequate fit. SEM allowed quantification of CMO configurations and could complement other qualitative and quantitative techniques in realist evaluations to support inferences about strengths of relationships. Future research exploring CMO configurations with SEM should aim to collect, preferably continuous, primary data.

3D MRI Modeling of Thin and Spatially Complex Soft Tissue Structures without Shrinkage: Lamprey Myosepta as an Example.

PubMed

Wood, Bradley M; Jia, Guang; Carmichael, Owen; McKlveen, Kevin; Homberger, Dominique G

2018-05-12

3D imaging techniques enable the non-destructive analysis and modeling of complex structures. Among these, MRI exhibits good soft tissue contrast, but is currently less commonly used for non-clinical research than x-ray CT, even though the latter requires contrast-staining that shrinks and distorts soft tissues. When the objective is the creation of a realistic and complete 3D model of soft tissue structures, MRI data are more demanding to acquire and visualize and require extensive post-processing because they comprise non-cubic voxels with dimensions that represent a trade-off between tissue contrast and image resolution. Therefore, thin soft tissue structures with complex spatial configurations are not always visible in a single MRI dataset, so that standard segmentation techniques are not sufficient for their complete visualization. By using the example of the thin and spatially complex connective tissue myosepta in lampreys, we developed a workflow protocol for the selection of the appropriate parameters for the acquisition of MRI data and for the visualization and 3D modeling of soft tissue structures. This protocol includes a novel recursive segmentation technique for supplementing missing data in one dataset with data from another dataset to produce realistic and complete 3D models. Such 3D models are needed for the modeling of dynamic processes, such as the biomechanics of fish locomotion. However, our methodology is applicable to the visualization of any thin soft tissue structures with complex spatial configurations, such as fasciae, aponeuroses, and small blood vessels and nerves, for clinical research and the further exploration of tensegrity. This article is protected by copyright. All rights reserved. © 2018 Wiley Periodicals, Inc.

Ignition and flame-growth modeling on realistic building and landscape objects in changing environments

Treesearch

Mark A. Dietenberger

2010-01-01

Effective mitigation of external fires on structures can be achieved flexibly, economically, and aesthetically by (1) preventing large-area ignition on structures by avoiding close proximity of burning vegetation; and (2) stopping flame travel from firebrands landing on combustible building objects. Using bench-scale and mid-scale fire tests to obtain flammability...

Mechanical Modeling and Computer Simulation of Protein Folding

ERIC Educational Resources Information Center

Prigozhin, Maxim B.; Scott, Gregory E.; Denos, Sharlene

2014-01-01

In this activity, science education and modern technology are bridged to teach students at the high school and undergraduate levels about protein folding and to strengthen their model building skills. Students are guided from a textbook picture of a protein as a rigid crystal structure to a more realistic view: proteins are highly dynamic…

Holland in Iceland Revisited: An Emic Approach to Evaluating U.S. Vocational Interest Models

ERIC Educational Resources Information Center

Einarsdottir, Sif; Rounds, James; Su, Rong

2010-01-01

An emic approach was used to test the structural validity and applicability of Holland's (1997) RIASEC (Realistic, Investigative, Artistic, Social, Enterprising, Conventional) model in Iceland. Archival data from the development of the Icelandic Interest Inventory (Einarsdottir & Rounds, 2007) were used in the present investigation. The data…

A Conceptual Model of the World of Work.

ERIC Educational Resources Information Center

VanRooy, William H.

The conceptual model described in this paper resulted from the need to organize a body of knowledge related to the world of work which would enable curriculum developers to prepare accurate, realistic instructional materials. The world of work is described by applying Malinowski's scientific study of the structural components of culture. It is…

Radiating dipoles in photonic crystals

PubMed

Busch; Vats; John; Sanders

2000-09-01

The radiation dynamics of a dipole antenna embedded in a photonic crystal are modeled by an initially excited harmonic oscillator coupled to a non-Markovian bath of harmonic oscillators representing the colored electromagnetic vacuum within the crystal. Realistic coupling constants based on the natural modes of the photonic crystal, i.e., Bloch waves and their associated dispersion relation, are derived. For simple model systems, well-known results such as decay times and emission spectra are reproduced. This approach enables direct incorporation of realistic band structure computations into studies of radiative emission from atoms and molecules within photonic crystals. We therefore provide a predictive and interpretative tool for experiments in both the microwave and optical regimes.

Three-Dimensional Printing of a Scalable Molecular Model and Orbital Kit for Organic Chemistry Teaching and Learning

ERIC Educational Resources Information Center

Penny, Matthew R.; Cao, Zi Jing; Patel, Bhaven; dos Santos, Bruno Sil; Asquith, Christopher R. M.; Szulc, Blanka R.; Rao, Zenobia X.; Muwaffak, Zaid; Malkinson, John P.; Hilton, Stephen T.

2017-01-01

Three-dimensional (3D) chemical models are a well-established learning tool used to enhance the understanding of chemical structures by converting two-dimensional paper or screen outputs into realistic three-dimensional objects. While commercial atom model kits are readily available, there is a surprising lack of large molecular and orbital models…

A revised econometric model of the domestic pallet market

Treesearch

Albert T. Schuler; Walter B. Wallin

1983-01-01

The purpose of this revised model is to project estimates of consumption and price of wooden pallets in the short term. This model differs from previous ones developed by Schuler and Wallin (1979 and 1980) in the following respects: The structure of the supply side of the market is more realistically identified (from an economic theory point of view) by including...

Modeling the QBO-Improvements resulting from higher-model vertical resolution.

PubMed

Geller, Marvin A; Zhou, Tiehan; Shindell, D; Ruedy, R; Aleinov, I; Nazarenko, L; Tausnev, N L; Kelley, M; Sun, S; Cheng, Y; Field, R D; Faluvegi, G

2016-09-01

Using the NASA Goddard Institute for Space Studies (GISS) climate model, it is shown that with proper choice of the gravity wave momentum flux entering the stratosphere and relatively fine vertical layering of at least 500 m in the upper troposphere-lower stratosphere (UTLS), a realistic stratospheric quasi-biennial oscillation (QBO) is modeled with the proper period, amplitude, and structure down to tropopause levels. It is furthermore shown that the specified gravity wave momentum flux controls the QBO period whereas the width of the gravity wave momentum flux phase speed spectrum controls the QBO amplitude. Fine vertical layering is required for the proper downward extension to tropopause levels as this permits wave-mean flow interactions in the UTLS region to be resolved in the model. When vertical resolution is increased from 1000 to 500 m, the modeled QBO modulation of the tropical tropopause temperatures increasingly approach that from observations, and the "tape recorder" of stratospheric water vapor also approaches the observed. The transport characteristics of our GISS models are assessed using age-of-air and N 2 O diagnostics, and it is shown that some of the deficiencies in model transport that have been noted in previous GISS models are greatly improved for all of our tested model vertical resolutions. More realistic tropical-extratropical transport isolation, commonly referred to as the "tropical pipe," results from the finer vertical model layering required to generate a realistic QBO.

Alleviating tropical Atlantic sector biases in the Kiel climate model by enhancing horizontal and vertical atmosphere model resolution: climatology and interannual variability

NASA Astrophysics Data System (ADS)

Harlaß, Jan; Latif, Mojib; Park, Wonsun

2018-04-01

We investigate the quality of simulating tropical Atlantic (TA) sector climatology and interannual variability in integrations of the Kiel climate model (KCM) with varying atmosphere model resolution. The ocean model resolution is kept fixed. A reasonable simulation of TA sector annual-mean climate, seasonal cycle and interannual variability can only be achieved at sufficiently high horizontal and vertical atmospheric resolution. Two major reasons for the improvements are identified. First, the western equatorial Atlantic westerly surface wind bias in spring can be largely eliminated, which is explained by a better representation of meridional and especially vertical zonal momentum transport. The enhanced atmospheric circulation along the equator in turn greatly improves the thermal structure of the upper equatorial Atlantic with much reduced warm sea surface temperature (SST) biases. Second, the coastline in the southeastern TA and steep orography are better resolved at high resolution, which improves wind structure and in turn reduces warm SST biases in the Benguela upwelling region. The strongly diminished wind and SST biases at high atmosphere model resolution allow for a more realistic latitudinal position of the intertropical convergence zone. Resulting stronger cross-equatorial winds, in conjunction with a shallower thermocline, enable a rapid cold tongue development in the eastern TA in boreal spring. This enables simulation of realistic interannual SST variability and its seasonal phase locking in the KCM, which primarily is the result of a stronger thermocline feedback. Our findings suggest that enhanced atmospheric resolution, both vertical and horizontal, could be a key to achieving more realistic simulation of TA climatology and interannual variability in climate models.

Pointing and tracking control for freedom's Solar Dynamic modules and vibration control of freedom

NASA Technical Reports Server (NTRS)

Quinn, Roger D.; Chen, Jiunn-Liang

1992-01-01

A control strategy is presented for pointing particular modules of flexible multibody space structures while simultaneously attenuating structural vibrations. The application that is addressed is the planned Space Station Freedom in a growth configuration with Solar Dynamic (SD) module. A NASTRAN model of Freedom is used to demonstrate the control strategy. Two cases of SD concentrator fine-pointing controller bandwidths are studied with examples. The effect of limiting the controller motor torques to realistic baseline values is examined. SD pointing and station vibration control is accomplished during realistic disturbances due to aerodynamic drag, Shuttle docking, and Shuttle reaction control system plume impingement on SD. Gravity gradient induced torques on SD are relatively small and pseudo-steady.

Magneto-optical response of InAs lens-shaped self-assembled quantum dots

NASA Technical Reports Server (NTRS)

Klimeck, G.; Oyafuso, F.; Lee, S.; Allmen, P. von

2003-01-01

In this work, we demonstrate a realistic modeling of the electronic structure for InAs self-assembled quantum dots and investigate the magneto-optical response, i.e., Zeeman splitting and transition rates between electron and hole levels.

A collision detection algorithm for telerobotic arms

NASA Technical Reports Server (NTRS)

Tran, Doan Minh; Bartholomew, Maureen Obrien

1991-01-01

The telerobotic manipulator's collision detection algorithm is described. Its applied structural model of the world environment and template representation of objects is evaluated. Functional issues that are required for the manipulator to operate in a more complex and realistic environment are discussed.

Seismic shaking scenarios in realistic 3D crustal model of Northern Italy

NASA Astrophysics Data System (ADS)

Molinari, I.; Morelli, A.; Basini, P.; Berbellini, A.

2013-12-01

Simulation of seismic wave propagation in realistic crustal structures is a fundamental tool to evaluate earthquake-generated ground shaking and assess seismic hazard. Current-generation numerical codes, and modern HPC infrastructures, allow for realistic simulations in complex 3D geologic structures. We apply such methodology to the Po Plain in Northern Italy -- a region with relatively rare earthquakes but having large property and industrial exposure, as it became clear during the two M~6 events of May 20-29, 2012. Historical seismicity is well known in this region, with maximum magnitudes estimates reaching M~7, and wave field amplitudes may be significantly amplified by the presence of the very thick sedimentary basin. Our goal is to produce estimates of expected ground shaking in Northern Italy through detailed deterministic simulations of ground motion due to expected earthquakes. We defined a three-dimensional model of the earth's crust using geo-statistical tools to merge the abundant information existing in the form of borehole data and seismic reflection profiles that had been shot in the '70s and the '80s for hydrocarbon exploration. Such information, that has been used by geologists to infer the deep structural setup, had never been merged to build a 3D model to be used for seismological simulations. We implement the model in SPECFEM3D_Cartesian and a hexahedral mesh with elements of ~2km, that allows us to simulate waves with minimum period of ~2 seconds. The model has then been optimized through comparison between simulated and recorded seismograms for the ~20 moderate-magnitude events (Mw > 4.5) that have been instrumentally recorded in the last 15 years. Realistic simulations in the frequency band of most common engineering relevance -- say, ~1 Hz -- at such a large scale would require an extremely detailed structural model, currently not available, and prohibitive computational resources. However, an interest is growing in longer period ground motion -- that impacts on the seismic response of taller structures (Cauzzi and Faccioli, 2008) -- and it is not unusual to consider the wave field up to 20s. In such period range, our Po Plain structural model has shown to be able to reproduce well basin resonance and amplification effects at stations boarding the sedimentary plain. We then simulate seismic shaking scenarios for possible sources tied to devastating historical earthquakes that are known to have occurred in the region --- such as the M~6 event that hit Modena in 1501; and the Verona, M~6.7 in 1117, quake that caused well-documented strong effects in an unusually wide area with radius of hundreds of kilometers. We explore different source geometries and rupture histories for each earthquake. We mainly focus our attention on the synthesis of the prominent surface waves that are highly amplified in deep sedimentary basin structures (e.g., Smerzini et al, 2011; Koketsu and Miyage, 2008). Such simulations hold high relevance because of the large local property exposure, due to extensive industrial and touristic infrastructure. We show that deterministic ground motion calculation can indeed provide information to be actively used to mitigate the effects of desctructive earthquakes on critical infrastructures.

Computation of Surface Laplacian for tri-polar ring electrodes on high-density realistic geometry head model.

PubMed

Junwei Ma; Han Yuan; Sunderam, Sridhar; Besio, Walter; Lei Ding

2017-07-01

Neural activity inside the human brain generate electrical signals that can be detected on the scalp. Electroencephalograph (EEG) is one of the most widely utilized techniques helping physicians and researchers to diagnose and understand various brain diseases. Due to its nature, EEG signals have very high temporal resolution but poor spatial resolution. To achieve higher spatial resolution, a novel tri-polar concentric ring electrode (TCRE) has been developed to directly measure Surface Laplacian (SL). The objective of the present study is to accurately calculate SL for TCRE based on a realistic geometry head model. A locally dense mesh was proposed to represent the head surface, where the local dense parts were to match the small structural components in TCRE. Other areas without dense mesh were used for the purpose of reducing computational load. We conducted computer simulations to evaluate the performance of the proposed mesh and evaluated possible numerical errors as compared with a low-density model. Finally, with achieved accuracy, we presented the computed forward lead field of SL for TCRE for the first time in a realistic geometry head model and demonstrated that it has better spatial resolution than computed SL from classic EEG recordings.

Details of regional particle deposition and airflow structures in a realistic model of human tracheobronchial airways: two-phase flow simulation.

PubMed

Rahimi-Gorji, Mohammad; Gorji, Tahereh B; Gorji-Bandpy, Mofid

2016-07-01

In the present investigation, detailed two-phase flow modeling of airflow, transport and deposition of micro-particles (1-10µm) in a realistic tracheobronchial airway geometry based on CT scan images under various breathing conditions (i.e. 10-60l/min) was considered. Lagrangian particle tracking has been used to investigate the particle deposition patterns in a model comprising mouth up to generation G6 of tracheobronchial airways. The results demonstrated that during all breathing patterns, the maximum velocity change occurred in the narrow throat region (Larynx). Due to implementing a realistic geometry for simulations, many irregularities and bending deflections exist in the airways model. Thereby, at higher inhalation rates, these areas are prone to vortical effects which tend to entrap the inhaled particles. According to the results, deposition fraction has a direct relationship with particle aerodynamic diameter (for dp=1-10µm). Enhancing inhalation flow rate and particle size will largely increase the inertial force and consequently, more particle deposition is evident suggesting that inertial impaction is the dominant deposition mechanism in tracheobronchial airways. Copyright © 2016 Elsevier Ltd. All rights reserved.

A validated methodology for the 3D reconstruction of cochlea geometries using human microCT images

NASA Astrophysics Data System (ADS)

Sakellarios, A. I.; Tachos, N. S.; Rigas, G.; Bibas, T.; Ni, G.; Böhnke, F.; Fotiadis, D. I.

2017-05-01

Accurate reconstruction of the inner ear is a prerequisite for the modelling and understanding of the inner ear mechanics. In this study, we present a semi-automated methodology for accurate reconstruction of the major inner ear structures (scalae, basilar membrane, stapes and semicircular canals). For this purpose, high resolution microCT images of a human specimen were used. The segmentation methodology is based on an iterative level set algorithm which provides the borders of the structures of interest. An enhanced coupled level set method which allows the simultaneous multiple image labeling without any overlapping regions has been developed for this purpose. The marching cube algorithm was applied in order to extract the surface from the segmented volume. The reconstructed geometries are then post-processed to improve the basilar membrane geometry to realistically represent physiologic dimensions. The final reconstructed model is compared to the available data from the literature. The results show that our generated inner ear structures are in good agreement with the published ones, while our approach is the most realistic in terms of the basilar membrane thickness and width reconstruction.

Polar semiconductor heterojunction structure energy band diagram considerations

NASA Astrophysics Data System (ADS)

Lin, Shuxun; Wen, Cheng P.; Wang, Maojun; Hao, Yilong

2016-03-01

The unique nature of built-in electric field induced positive/negative charge pairs of polar semiconductor heterojunction structure has led to a more realistic device model for hexagonal III-nitride HEMT. In this modeling approach, the distribution of charge carriers is dictated by the electrostatic potential profile instead of Femi statistics. The proposed device model is found suitable to explain peculiar properties of GaN HEMT structures, including: (1) Discrepancy in measured conventional linear transmission line model (LTLM) sheet resistance and contactless sheet resistance of GaN HEMT with thin barrier layer. (2) Below bandgap radiation from forward biased Nickel Schottky barrier diode on GaN HEMT structure. (3) GaN HEMT barrier layer doping has negligible effect on transistor channel sheet charge density.

Atomistic simulations of TeO₂-based glasses: interatomic potentials and molecular dynamics.

PubMed

Gulenko, Anastasia; Masson, Olivier; Berghout, Abid; Hamani, David; Thomas, Philippe

2014-07-21

In this work we present for the first time empirical interatomic potentials that are able to reproduce TeO2-based systems. Using these potentials in classical molecular dynamics simulations, we obtained first results for the pure TeO2 glass structure model. The calculated pair distribution function is in good agreement with the experimental one, which indicates a realistic glass structure model. We investigated the short- and medium-range TeO2 glass structures. The local environment of the Te atom strongly varies, so that the glass structure model has a broad Q polyhedral distribution. The glass network is described as weakly connected with a large number of terminal oxygen atoms.

Nonlinear characterization of a bolted, industrial structure using a modal framework

NASA Astrophysics Data System (ADS)

Roettgen, Daniel R.; Allen, Matthew S.

2017-02-01

This article presents measurements from a sub assembly of an off-the-shelf automotive exhaust system containing a bolted-flange connection and uses a recently proposed modal framework to develop a nonlinear dynamic model for the structure. The nonlinear identification and characterization methods used are reviewed to highlight the strengths of the current approach and the areas where further development is needed. This marks the first use of these new testing and nonlinear identification tools, and the associated modal framework, on production hardware with a realistic joint and realistic torque levels. To screen the measurements for nonlinearities, we make use of a time frequency analysis routine designed for transient responses called the zeroed early-time fast Fourier transform (ZEFFT). This tool typically reveals the small frequency shifts and distortions that tend to occur near each mode that is affected by the nonlinearity. The damping in this structure is found to be significantly nonlinear and a Hilbert transform is used to characterize the damping versus amplitude behavior. A model is presented that captures these effects for each mode individually (e.g. assuming negligible nonlinear coupling between modes), treating each mode as a single degree-of-freedom oscillator with a spring and viscous damping element in parallel with a four parameter Iwan model. The parameters of this model are identified for each of the structure's modes that exhibited nonlinearity and the resulting nonlinear model is shown to capture the stiffness and damping accurately over a large range of response amplitudes.

Performance Evaluation and Improvement of Ferroelectric Field-Effect Transistor Memory

NASA Astrophysics Data System (ADS)

Yu, Hyung Suk

Flash memory is reaching scaling limitations rapidly due to reduction of charge in floating gates, charge leakage and capacitive coupling between cells which cause threshold voltage fluctuations, short retention times, and interference. Many new memory technologies are being considered as alternatives to flash memory in an effort to overcome these limitations. Ferroelectric Field-Effect Transistor (FeFET) is one of the main emerging candidates because of its structural similarity to conventional FETs and fast switching speed. Nevertheless, the performance of FeFETs have not been systematically compared and analyzed against other competing technologies. In this work, we first benchmark the intrinsic performance of FeFETs and other memories by simulations in order to identify the strengths and weaknesses of FeFETs. To simulate realistic memory applications, we compare memories on an array structure. For the comparisons, we construct an accurate delay model and verify it by benchmarking against exact HSPICE simulations. Second, we propose an accurate model for FeFET memory window since the existing model has limitations. The existing model assumes symmetric operation voltages but it is not valid for the practical asymmetric operation voltages. In this modeling, we consider practical operation voltages and device dimensions. Also, we investigate realistic changes of memory window over time and retention time of FeFETs. Last, to improve memory window and subthreshold swing, we suggest nonplanar junctionless structures for FeFETs. Using the suggested structures, we study the dimensional dependences of crucial parameters like memory window and subthreshold swing and also analyze key interference mechanisms.

Electromagnetic properties of ice coated surfaces

NASA Technical Reports Server (NTRS)

Dominek, A.; Walton, E.; Wang, N.; Beard, L.

1989-01-01

The electromagnetic scattering from ice coated structures is examined. The influence of ice is shown from a measurement standpoint and related to a simple analytical model. A hardware system for the realistic measurement of ice coated structures is also being developed to use in an existing NASA Lewis icing tunnel. Presently, initial measurements have been performed with a simulated tunnel to aid in the development.

How Students and Field Geologists Reason in Integrating Spatial Observations from Outcrops to Visualize a 3-D Geological Structure

ERIC Educational Resources Information Center

Kastens, Kim A.; Agrawal, Shruti; Liben, Lynn S.

2009-01-01

Geologists and undergraduate students observed eight artificial "rock outcrops" in a realistically scaled field area, and then tried to envision a geological structure that might plausibly be formed by the layered rocks in the set of outcrops. Students were videotaped as they selected which of fourteen 3-D models they thought best…

Patient-Specific Computational Modeling of Human Phonation

NASA Astrophysics Data System (ADS)

Xue, Qian; Zheng, Xudong; University of Maine Team

2013-11-01

Phonation is a common biological process resulted from the complex nonlinear coupling between glottal aerodynamics and vocal fold vibrations. In the past, the simplified symmetric straight geometric models were commonly employed for experimental and computational studies. The shape of larynx lumen and vocal folds are highly three-dimensional indeed and the complex realistic geometry produces profound impacts on both glottal flow and vocal fold vibrations. To elucidate the effect of geometric complexity on voice production and improve the fundamental understanding of human phonation, a full flow-structure interaction simulation is carried out on a patient-specific larynx model. To the best of our knowledge, this is the first patient-specific flow-structure interaction study of human phonation. The simulation results are well compared to the established human data. The effects of realistic geometry on glottal flow and vocal fold dynamics are investigated. It is found that both glottal flow and vocal fold dynamics present a high level of difference from the previous simplified model. This study also paved the important step toward the development of computer model for voice disease diagnosis and surgical planning. The project described was supported by Grant Number ROlDC007125 from the National Institute on Deafness and Other Communication Disorders (NIDCD).

A Model of Creativity in Organizations: John Holland's Theory of Vocational Choice (1973) at Multiple Levels of Analysis

ERIC Educational Resources Information Center

Sharif, Rukhsar

2017-01-01

This conceptual paper serves to create a model of creativity and innovation at different organizational levels. It draws on John Holland's Theory of Vocational Choice (1973) as the basis for its structure by incorporating the six different personality types from his theory: conventional, enterprising, realistic, social, investigative, and…

Probabilistic design of fibre concrete structures

NASA Astrophysics Data System (ADS)

Pukl, R.; Novák, D.; Sajdlová, T.; Lehký, D.; Červenka, J.; Červenka, V.

2017-09-01

Advanced computer simulation is recently well-established methodology for evaluation of resistance of concrete engineering structures. The nonlinear finite element analysis enables to realistically predict structural damage, peak load, failure, post-peak response, development of cracks in concrete, yielding of reinforcement, concrete crushing or shear failure. The nonlinear material models can cover various types of concrete and reinforced concrete: ordinary concrete, plain or reinforced, without or with prestressing, fibre concrete, (ultra) high performance concrete, lightweight concrete, etc. Advanced material models taking into account fibre concrete properties such as shape of tensile softening branch, high toughness and ductility are described in the paper. Since the variability of the fibre concrete material properties is rather high, the probabilistic analysis seems to be the most appropriate format for structural design and evaluation of structural performance, reliability and safety. The presented combination of the nonlinear analysis with advanced probabilistic methods allows evaluation of structural safety characterized by failure probability or by reliability index respectively. Authors offer a methodology and computer tools for realistic safety assessment of concrete structures; the utilized approach is based on randomization of the nonlinear finite element analysis of the structural model. Uncertainty of the material properties or their randomness obtained from material tests are accounted in the random distribution. Furthermore, degradation of the reinforced concrete materials such as carbonation of concrete, corrosion of reinforcement, etc. can be accounted in order to analyze life-cycle structural performance and to enable prediction of the structural reliability and safety in time development. The results can serve as a rational basis for design of fibre concrete engineering structures based on advanced nonlinear computer analysis. The presented methodology is illustrated on results from two probabilistic studies with different types of concrete structures related to practical applications and made from various materials (with the parameters obtained from real material tests).

Statistical Comparison of Spike Responses to Natural Stimuli in Monkey Area V1 With Simulated Responses of a Detailed Laminar Network Model for a Patch of V1

PubMed Central

Schuch, Klaus; Logothetis, Nikos K.; Maass, Wolfgang

2011-01-01

A major goal of computational neuroscience is the creation of computer models for cortical areas whose response to sensory stimuli resembles that of cortical areas in vivo in important aspects. It is seldom considered whether the simulated spiking activity is realistic (in a statistical sense) in response to natural stimuli. Because certain statistical properties of spike responses were suggested to facilitate computations in the cortex, acquiring a realistic firing regimen in cortical network models might be a prerequisite for analyzing their computational functions. We present a characterization and comparison of the statistical response properties of the primary visual cortex (V1) in vivo and in silico in response to natural stimuli. We recorded from multiple electrodes in area V1 of 4 macaque monkeys and developed a large state-of-the-art network model for a 5 × 5-mm patch of V1 composed of 35,000 neurons and 3.9 million synapses that integrates previously published anatomical and physiological details. By quantitative comparison of the model response to the “statistical fingerprint” of responses in vivo, we find that our model for a patch of V1 responds to the same movie in a way which matches the statistical structure of the recorded data surprisingly well. The deviation between the firing regimen of the model and the in vivo data are on the same level as deviations among monkeys and sessions. This suggests that, despite strong simplifications and abstractions of cortical network models, they are nevertheless capable of generating realistic spiking activity. To reach a realistic firing state, it was not only necessary to include both N-methyl-d-aspartate and GABAB synaptic conductances in our model, but also to markedly increase the strength of excitatory synapses onto inhibitory neurons (>2-fold) in comparison to literature values, hinting at the importance to carefully adjust the effect of inhibition for achieving realistic dynamics in current network models. PMID:21106898

United States Air Force Graduate Student Research Program. 1989 Program Technical Report. Volume 1

DTIC Science & Technology

1989-12-01

Analysis is required to supplement the experimental observations, which requires the formulation of a realistic model of the physical problem...RECOMMENDATION: a . From our point of view, the research team considere the NASTRAN model correct due to the vibrational frequencies, but we are still...structure of the program was understood, attempts were made to change the model from a thunderstorm simulation

Reference Models for Multi-Layer Tissue Structures

DTIC Science & Technology

2016-09-01

simulation,  finite   element  analysis 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF ABSTRACT 18. NUMBER OF PAGES 19a. NAME OF RESPONSIBLE PERSON USAMRMC...Physiologically realistic, fully specimen-specific, nonlinear reference models. Tasks. Finite element analysis of non-linear mechanics of cadaver...models. Tasks. Finite element analysis of non-linear mechanics of multi-layer tissue regions of human subjects. Deliverables. Partially subject- and

Resting-state functional connectivity emerges from structurally and dynamically shaped slow linear fluctuations.

PubMed

Deco, Gustavo; Ponce-Alvarez, Adrián; Mantini, Dante; Romani, Gian Luca; Hagmann, Patric; Corbetta, Maurizio

2013-07-03

Brain fluctuations at rest are not random but are structured in spatial patterns of correlated activity across different brain areas. The question of how resting-state functional connectivity (FC) emerges from the brain's anatomical connections has motivated several experimental and computational studies to understand structure-function relationships. However, the mechanistic origin of resting state is obscured by large-scale models' complexity, and a close structure-function relation is still an open problem. Thus, a realistic but simple enough description of relevant brain dynamics is needed. Here, we derived a dynamic mean field model that consistently summarizes the realistic dynamics of a detailed spiking and conductance-based synaptic large-scale network, in which connectivity is constrained by diffusion imaging data from human subjects. The dynamic mean field approximates the ensemble dynamics, whose temporal evolution is dominated by the longest time scale of the system. With this reduction, we demonstrated that FC emerges as structured linear fluctuations around a stable low firing activity state close to destabilization. Moreover, the model can be further and crucially simplified into a set of motion equations for statistical moments, providing a direct analytical link between anatomical structure, neural network dynamics, and FC. Our study suggests that FC arises from noise propagation and dynamical slowing down of fluctuations in an anatomically constrained dynamical system. Altogether, the reduction from spiking models to statistical moments presented here provides a new framework to explicitly understand the building up of FC through neuronal dynamics underpinned by anatomical connections and to drive hypotheses in task-evoked studies and for clinical applications.

Coupled numerical simulation of fire in tunnel

NASA Astrophysics Data System (ADS)

Pesavento, F.; Pachera, M.; Schrefler, B. A.; Gawin, D.; Witek, A.

2018-01-01

In this work, a coupling strategy for the analysis of a tunnel under fire is presented. This strategy consists in a "one-way" coupling between a tool considering the computational fluid dynamics and radiation with a model treating concrete as a multiphase porous material exposed to high temperature. This global approach allows for taking into account in a realistic manner the behavior of the "system tunnel", composed of the fluid and the solid domain (i.e. the concrete structures), from the fire onset, its development and propagation to the response of the structure. The thermal loads as well as the moisture exchange between the structure surface and the environment are calculated by means of computational fluid dynamics. These set of data are passed in an automatic way to the numerical tool implementing a model based on Multiphase Porous Media Mechanics. Thanks to this strategy the structural verification is no longer based on the standard fire curves commonly used in the engineering practice, but it is directly related to a realistic fire scenario. To show the capability of this strategy some numerical simulations of a fire in the Brenner Base Tunnel, under construction between Italy and Austria, is presented. The numerical simulations show the effects of a more realistic distribution of the thermal loads with respect to the ones obtained by using the standard fire curves. Moreover, it is possible to highlight how the localized thermal load generates a non-uniform pressure rise in the material, which results in an increase of the structure stress state and of the spalling risk. Spalling is likely the most dangerous collapse mechanism for a concrete structure. This coupling approach still represents a "one way" strategy, i.e. realized without considering explicitly the mass and energy exchange from the structure to the fluid through the interface. This results in an approximation, but from physical point of view the current form of the solid-fluid coupling is considered sufficiently accurate in this first phase of the research.

Mathematical modeling of a class of multibody flexible spacecraft structures

NASA Technical Reports Server (NTRS)

Kelkar, Atul, G.

1994-01-01

A mathematical model for a general multibody flexible spacecraft is obtained. The generic spacecraft considered consists of a flexible central body to which a number of flexible multibody structures are attached. The coordinate systems used in the derivation allow effective decoupling of the translational motion of the entire spacecraft from its rotational motion about its center of mass. The derivation assumes that the deformations in the bodies are only due to elastic motions. The dynamic model derived is a closed-form vector-matrix differential equation. The model developed can be used for analysis and simulation of many realistic spacecraft configurations.

Impact of Truck Loading on Design and Analysis of Asphaltic Pavement Structures : Phase III

DOT National Transportation Integrated Search

2012-03-01

This study investigated the impact of the realistic constitutive material behavior of asphalt layer (both nonlinear inelastic : and fracture) for the prediction of pavement performance. To this end, this study utilized a cohesive zone model to consid...

Silkworm cocoons inspire models for random fiber and particulate composites

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

Chen Fujia; Porter, David; Vollrath, Fritz

The bioengineering design principles evolved in silkworm cocoons make them ideal natural prototypes and models for structural composites. Cocoons depend for their stiffness and strength on the connectivity of bonding between their constituent materials of silk fibers and sericin binder. Strain-activated mechanisms for loss of bonding connectivity in cocoons can be translated directly into a surprisingly simple yet universal set of physically realistic as well as predictive quantitative structure-property relations for a wide range of technologically important fiber and particulate composite materials.

Silkworm cocoons inspire models for random fiber and particulate composites

NASA Astrophysics Data System (ADS)

Chen, Fujia; Porter, David; Vollrath, Fritz

2010-10-01

The bioengineering design principles evolved in silkworm cocoons make them ideal natural prototypes and models for structural composites. Cocoons depend for their stiffness and strength on the connectivity of bonding between their constituent materials of silk fibers and sericin binder. Strain-activated mechanisms for loss of bonding connectivity in cocoons can be translated directly into a surprisingly simple yet universal set of physically realistic as well as predictive quantitative structure-property relations for a wide range of technologically important fiber and particulate composite materials.

Numerical simulation of cloud and precipitation structure during GALE IOP-2

NASA Technical Reports Server (NTRS)

Robertson, F. R.; Perkey, D. J.; Seablom, M. S.

1988-01-01

A regional scale model, LAMPS (Limited Area Mesoscale Prediction System), is used to investigate cloud and precipitation structure that accompanied a short wave system during a portion of GALE IOP-2. A comparison of satellite imagery and model fields indicates that much of the large mesoscale organization of condensation has been captured by the simulation. In addition to reproducing a realistic phasing of two baroclinic zones associated with a split cold front, a reasonable simulation of the gross mesoscale cloud distribution has been achieved.

High-efficiency AlGaAs-GaAs Cassegrainian concentrator cells

NASA Technical Reports Server (NTRS)

Werthen, J. G.; Hamaker, H. C.; Virshup, G. F.; Lewis, C. R.; Ford, C. W.

1985-01-01

AlGaAs-GaAs heteroface space concentrator solar cells have been fabricated by metalorganic chemical vapor deposition. AMO efficiencies as high as 21.1% have been observed both for p-n and np structures under concentration (90 to 100X) at 25 C. Both cell structures are characterized by high quantum efficiencies and their performances are close to those predicted by a realistic computer model. In agreement with the computer model, the n-p cell exhibits a higher short-circuit current density.

Kinematics, structural mechanics, and design of origami structures with smooth folds

NASA Astrophysics Data System (ADS)

Peraza Hernandez, Edwin Alexander

Origami provides novel approaches to the fabrication, assembly, and functionality of engineering structures in various fields such as aerospace, robotics, etc. With the increase in complexity of the geometry and materials for origami structures that provide engineering utility, computational models and design methods for such structures have become essential. Currently available models and design methods for origami structures are generally limited to the idealization of the folds as creases of zeroth-order geometric continuity. Such an idealization is not proper for origami structures having non-negligible thickness or maximum curvature at the folds restricted by material limitations. Thus, for general structures, creased folds of merely zeroth-order geometric continuity are not appropriate representations of structural response and a new approach is needed. The first contribution of this dissertation is a model for the kinematics of origami structures having realistic folds of non-zero surface area and exhibiting higher-order geometric continuity, here termed smooth folds. The geometry of the smooth folds and the constraints on their associated kinematic variables are presented. A numerical implementation of the model allowing for kinematic simulation of structures having arbitrary fold patterns is also described. Examples illustrating the capability of the model to capture realistic structural folding response are provided. Subsequently, a method for solving the origami design problem of determining the geometry of a single planar sheet and its pattern of smooth folds that morphs into a given three-dimensional goal shape, discretized as a polygonal mesh, is presented. The design parameterization of the planar sheet and the constraints that allow for a valid pattern of smooth folds and approximation of the goal shape in a known folded configuration are presented. Various testing examples considering goal shapes of diverse geometries are provided. Afterwards, a model for the structural mechanics of origami continuum bodies with smooth folds is presented. Such a model entails the integration of the presented kinematic model and existing plate theories in order to obtain a structural representation for folds having non-zero thickness and comprised of arbitrary materials. The model is validated against finite element analysis. The last contribution addresses the design and analysis of active material-based self-folding structures that morph via simultaneous folding towards a given three-dimensional goal shape starting from a planar configuration. Implementation examples including shape memory alloy (SMA)-based self-folding structures are provided.

Three-Dimensional Computer-Assisted Two-Layer Elastic Models of the Face.

PubMed

Ueda, Koichi; Shigemura, Yuka; Otsuki, Yuki; Fuse, Asuka; Mitsuno, Daisuke

2017-11-01

To make three-dimensional computer-assisted elastic models for the face, we decided on five requirements: (1) an elastic texture like skin and subcutaneous tissue; (2) the ability to take pen marking for incisions; (3) the ability to be cut with a surgical knife; (4) the ability to keep stitches in place for a long time; and (5) a layered structure. After testing many elastic solvents, we have made realistic three-dimensional computer-assisted two-layer elastic models of the face and cleft lip from the computed tomographic and magnetic resonance imaging stereolithographic data. The surface layer is made of polyurethane and the inner layer is silicone. Using this elastic model, we taught residents and young doctors how to make several typical local flaps and to perform cheiloplasty. They could experience realistic simulated surgery and understand three-dimensional movement of the flaps.

An empirical generative framework for computational modeling of language acquisition.

PubMed

Waterfall, Heidi R; Sandbank, Ben; Onnis, Luca; Edelman, Shimon

2010-06-01

This paper reports progress in developing a computer model of language acquisition in the form of (1) a generative grammar that is (2) algorithmically learnable from realistic corpus data, (3) viable in its large-scale quantitative performance and (4) psychologically real. First, we describe new algorithmic methods for unsupervised learning of generative grammars from raw CHILDES data and give an account of the generative performance of the acquired grammars. Next, we summarize findings from recent longitudinal and experimental work that suggests how certain statistically prominent structural properties of child-directed speech may facilitate language acquisition. We then present a series of new analyses of CHILDES data indicating that the desired properties are indeed present in realistic child-directed speech corpora. Finally, we suggest how our computational results, behavioral findings, and corpus-based insights can be integrated into a next-generation model aimed at meeting the four requirements of our modeling framework.

A finite element head and neck model as a supportive tool for deformable image registration.

PubMed

Kim, Jihun; Saitou, Kazuhiro; Matuszak, Martha M; Balter, James M

2016-07-01

A finite element (FE) head and neck model was developed as a tool to aid investigations and development of deformable image registration and patient modeling in radiation oncology. Useful aspects of a FE model for these purposes include ability to produce realistic deformations (similar to those seen in patients over the course of treatment) and a rational means of generating new configurations, e.g., via the application of force and/or displacement boundary conditions. The model was constructed based on a cone-beam computed tomography image of a head and neck cancer patient. The three-node triangular surface meshes created for the bony elements (skull, mandible, and cervical spine) and joint elements were integrated into a skeletal system and combined with the exterior surface. Nodes were additionally created inside the surface structures which were composed of the three-node triangular surface meshes, so that four-node tetrahedral FE elements were created over the whole region of the model. The bony elements were modeled as a homogeneous linear elastic material connected by intervertebral disks. The surrounding tissues were modeled as a homogeneous linear elastic material. Under force or displacement boundary conditions, FE analysis on the model calculates approximate solutions of the displacement vector field. A FE head and neck model was constructed that skull, mandible, and cervical vertebrae were mechanically connected by disks. The developed FE model is capable of generating realistic deformations that are strain-free for the bony elements and of creating new configurations of the skeletal system with the surrounding tissues reasonably deformed. The FE model can generate realistic deformations for skeletal elements. In addition, the model provides a way of evaluating the accuracy of image alignment methods by producing a ground truth deformation and correspondingly simulated images. The ability to combine force and displacement conditions provides flexibility for simulating realistic anatomic configurations.

An empirical model of water quality for use in rapid management strategy evaluation in Southeast Queensland, Australia.

PubMed

de la Mare, William; Ellis, Nick; Pascual, Ricardo; Tickell, Sharon

2012-04-01

Simulation models have been widely adopted in fisheries for management strategy evaluation (MSE). However, in catchment management of water quality, MSE is hampered by the complexity of both decision space and the hydrological process models. Empirical models based on monitoring data provide a feasible alternative to process models; they run much faster and, by conditioning on data, they can simulate realistic responses to management actions. Using 10 years of water quality indicators from Queensland, Australia, we built an empirical model suitable for rapid MSE that reproduces the water quality variables' mean and covariance structure, adjusts the expected indicators through local management effects, and propagates effects downstream by capturing inter-site regression relationships. Empirical models enable managers to search the space of possible strategies using rapid assessment. They provide not only realistic responses in water quality indicators but also variability in those indicators, allowing managers to assess strategies in an uncertain world. Copyright © 2012 Elsevier Ltd. All rights reserved.

Modeling the QBO—Improvements resulting from higher‐model vertical resolution

PubMed Central

Zhou, Tiehan; Shindell, D.; Ruedy, R.; Aleinov, I.; Nazarenko, L.; Tausnev, N. L.; Kelley, M.; Sun, S.; Cheng, Y.; Field, R. D.; Faluvegi, G.

2016-01-01

Abstract Using the NASA Goddard Institute for Space Studies (GISS) climate model, it is shown that with proper choice of the gravity wave momentum flux entering the stratosphere and relatively fine vertical layering of at least 500 m in the upper troposphere‐lower stratosphere (UTLS), a realistic stratospheric quasi‐biennial oscillation (QBO) is modeled with the proper period, amplitude, and structure down to tropopause levels. It is furthermore shown that the specified gravity wave momentum flux controls the QBO period whereas the width of the gravity wave momentum flux phase speed spectrum controls the QBO amplitude. Fine vertical layering is required for the proper downward extension to tropopause levels as this permits wave‐mean flow interactions in the UTLS region to be resolved in the model. When vertical resolution is increased from 1000 to 500 m, the modeled QBO modulation of the tropical tropopause temperatures increasingly approach that from observations, and the “tape recorder” of stratospheric water vapor also approaches the observed. The transport characteristics of our GISS models are assessed using age‐of‐air and N2O diagnostics, and it is shown that some of the deficiencies in model transport that have been noted in previous GISS models are greatly improved for all of our tested model vertical resolutions. More realistic tropical‐extratropical transport isolation, commonly referred to as the “tropical pipe,” results from the finer vertical model layering required to generate a realistic QBO. PMID:27917258

Mechanical stabilization of the Levitron's realistic model

NASA Astrophysics Data System (ADS)

Olvera, Arturo; De la Rosa, Abraham; Giordano, Claudia M.

2016-11-01

The stability of the magnetic levitation showed by the Levitron was studied by M.V. Berry as a six degrees of freedom Hamiltonian system using an adiabatic approximation. Further, H.R. Dullin found critical spin rate bounds where the levitation persists and R.F. Gans et al. offered numerical results regarding the initial conditions' manifold where this occurs. In the line of this series of works, first, we extend the equations of motion to include dissipation for a more realistic model, and then introduce a mechanical forcing to inject energy into the system in order to prevent the Levitron from falling. A systematic study of the flying time as a function of the forcing parameters is carried out which yields detailed bifurcation diagrams showing an Arnold's tongues structure. The stability of these solutions were studied with the help of a novel method to compute the maximum Lyapunov exponent called MEGNO. The bifurcation diagrams for MEGNO reproduce the same Arnold's tongue structure.

Detecting sign-changing superconducting gap in LiFeAs using quasiparticle interference

NASA Astrophysics Data System (ADS)

Altenfeld, D.; Hirschfeld, P. J.; Mazin, I. I.; Eremin, I.

2018-02-01

Using a realistic ten-orbital tight-binding model Hamiltonian fitted to the angle-resolved photoemission spectroscopy data on LiFeAs, we analyze the temperature, frequency, and momentum dependencies of quasiparticle interference to identify gap sign changes in a qualitative way, following our original proposal [Phys. Rev. B 92, 184513 (2015), 10.1103/PhysRevB.92.184513]. We show that all features present for the simple two-band model for the sign-changing s+--wave superconducting gap employed previously are still present in the realistic tight-binding approximation and gap values observed experimentally. We discuss various superconducting gap structures proposed for LiFeAs and identify various features of these superconducting gap functions in the quasiparticle interference patterns. On the other hand, we show that it will be difficult to identify the more complicated possible sign structures of the hole pocket gaps in LiFeAs due to the smallness of the pockets and the near proximity of two of the gap energies.

Component mode synthesis and large deflection vibration of complex structures. Volume 3: Multiple-mode nonlinear free and forced vibrations of beams using finite element method

NASA Technical Reports Server (NTRS)

Mei, Chuh; Shen, Mo-How

1987-01-01

Multiple-mode nonlinear forced vibration of a beam was analyzed by the finite element method. Inplane (longitudinal) displacement and inertia (IDI) are considered in the formulation. By combining the finite element method and nonlinear theory, more realistic models of structural response are obtained more easily and faster.

Research Program for Vibration Control in Structures

NASA Technical Reports Server (NTRS)

Mingori, D. L.; Gibson, J. S.

1986-01-01

Purpose of program to apply control theory to large space structures (LSS's) and design practical compensator for suppressing vibration. Program models LSS as distributed system. Control theory applied to produce compensator described by functional gains and transfer functions. Used for comparison of robustness of low- and high-order compensators that control surface vibrations of realistic wrap-rib antenna. Program written in FORTRAN for batch execution.

Electronic structure of alloys

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

Ehrenreich, H.; Schwartz, L.M.

1976-01-01

The description of electronic properties of binary substitutional alloys within the single particle approximation is reviewed. Emphasis is placed on a didactic exposition of the equilibrium properties of the transport and magnetic properties of such alloys. Topics covered include: multiple scattering theory; the single band alloy; formal extensions of the theory; the alloy potential; realistic model state densities; the s-d model; and the muffin tin model. 43 figures, 3 tables, 151 references. (GHT)

Design and Validation of 3D Printed Complex Bone Models with Internal Anatomic Fidelity for Surgical Training and Rehearsal.

PubMed

Unger, Bertram J; Kraut, Jay; Rhodes, Charlotte; Hochman, Jordan

2014-01-01

Physical models of complex bony structures can be used for surgical skills training. Current models focus on surface rendering but suffer from a lack of internal accuracy due to limitations in the manufacturing process. We describe a technique for generating internally accurate rapid-prototyped anatomical models with solid and hollow structures from clinical and microCT data using a 3D printer. In a face validation experiment, otolaryngology residents drilled a cadaveric bone and its corresponding printed model. The printed bone models were deemed highly realistic representations across all measured parameters and the educational value of the models was strongly appreciated.

Age structure and mortality of walleyes in Kansas reservoirs: Use of mortality caps to establish realistic management objectives

USGS Publications Warehouse

Quist, M.C.; Stephen, J.L.; Guy, C.S.; Schultz, R.D.

2004-01-01

Age structure, total annual mortality, and mortality caps (maximum mortality thresholds established by managers) were investigated for walleye Sander vitreus (formerly Stizostedion vitreum) populations sampled from eight Kansas reservoirs during 1991-1999. We assessed age structure by examining the relative frequency of different ages in the population; total annual mortality of age-2 and older walleyes was estimated by use of a weighted catch curve. To evaluate the utility of mortality caps, we modeled threshold values of mortality by varying growth rates and management objectives. Estimated mortality thresholds were then compared with observed growth and mortality rates. The maximum age of walleyes varied from 5 to 11 years across reservoirs. Age structure was dominated (???72%) by walleyes age 3 and younger in all reservoirs, corresponding to ages that were not yet vulnerable to harvest. Total annual mortality rates varied from 40.7% to 59.5% across reservoirs and averaged 51.1% overall (SE = 2.3). Analysis of mortality caps indicated that a management objective of 500 mm for the mean length of walleyes harvested by anglers was realistic for all reservoirs with a 457-mm minimum length limit but not for those with a 381-mm minimum length limit. For a 500-mm mean length objective to be realized for reservoirs with a 381-mm length limit, managers must either reduce mortality rates (e.g., through restrictive harvest regulations) or increase growth of walleyes. When the assumed objective was to maintain the mean length of harvested walleyes at current levels, the observed annual mortality rates were below the mortality cap for all reservoirs except one. Mortality caps also provided insight on management objectives expressed in terms of proportional stock density (PSD). Results indicated that a PSD objective of 20-40 was realistic for most reservoirs. This study provides important walleye mortality information that can be used for monitoring or for inclusion into population models; these results can also be combined with those of other studies to investigate large-scale differences in walleye mortality. Our analysis illustrates the utility of mortality caps for monitoring walleye populations and for establishing realistic management goals.

Visualization of RNA structure models within the Integrative Genomics Viewer.

PubMed

Busan, Steven; Weeks, Kevin M

2017-07-01

Analyses of the interrelationships between RNA structure and function are increasingly important components of genomic studies. The SHAPE-MaP strategy enables accurate RNA structure probing and realistic structure modeling of kilobase-length noncoding RNAs and mRNAs. Existing tools for visualizing RNA structure models are not suitable for efficient analysis of long, structurally heterogeneous RNAs. In addition, structure models are often advantageously interpreted in the context of other experimental data and gene annotation information, for which few tools currently exist. We have developed a module within the widely used and well supported open-source Integrative Genomics Viewer (IGV) that allows visualization of SHAPE and other chemical probing data, including raw reactivities, data-driven structural entropies, and data-constrained base-pair secondary structure models, in context with linear genomic data tracks. We illustrate the usefulness of visualizing RNA structure in the IGV by exploring structure models for a large viral RNA genome, comparing bacterial mRNA structure in cells with its structure under cell- and protein-free conditions, and comparing a noncoding RNA structure modeled using SHAPE data with a base-pairing model inferred through sequence covariation analysis. © 2017 Busan and Weeks; Published by Cold Spring Harbor Laboratory Press for the RNA Society.

Fluid-Structure Interaction Analysis of Ruptured Mitral Chordae Tendineae.

PubMed

Toma, Milan; Bloodworth, Charles H; Pierce, Eric L; Einstein, Daniel R; Cochran, Richard P; Yoganathan, Ajit P; Kunzelman, Karyn S

2017-03-01

The chordal structure is a part of mitral valve geometry that has been commonly neglected or simplified in computational modeling due to its complexity. However, these simplifications cannot be used when investigating the roles of individual chordae tendineae in mitral valve closure. For the first time, advancements in imaging, computational techniques, and hardware technology make it possible to create models of the mitral valve without simplifications to its complex geometry, and to quickly run validated computer simulations that more realistically capture its function. Such simulations can then be used for a detailed analysis of chordae-related diseases. In this work, a comprehensive model of a subject-specific mitral valve with detailed chordal structure is used to analyze the distinct role played by individual chordae in closure of the mitral valve leaflets. Mitral closure was simulated for 51 possible chordal rupture points. Resultant regurgitant orifice area and strain change in the chordae at the papillary muscle tips were then calculated to examine the role of each ruptured chorda in the mitral valve closure. For certain subclassifications of chordae, regurgitant orifice area was found to trend positively with ruptured chordal diameter, and strain changes correlated negatively with regurgitant orifice area. Further advancements in clinical imaging modalities, coupled with the next generation of computational techniques will enable more physiologically realistic simulations.

Fluid-Structure Interaction Analysis of Ruptured Mitral Chordae Tendineae

PubMed Central

Toma, Milan; Bloodworth, Charles H.; Pierce, Eric L.; Einstein, Daniel R.; Cochran, Richard P.; Yoganathan, Ajit P.; Kunzelman, Karyn S.

2016-01-01

The chordal structure is a part of mitral valve geometry that has been commonly neglected or simplified in computational modeling due to its complexity. However, these simplifications cannot be used when investigating the roles of individual chordae tendineae in mitral valve closure. For the first time, advancements in imaging, computational techniques, and hardware technology make it possible to create models of the mitral valve without simplifications to its complex geometry, and to quickly run validated computer simulations that more realistically capture its function. Such simulations can then be used for a detailed analysis of chordae-related diseases. In this work, a comprehensive model of a subject-specific mitral valve with detailed chordal structure is used to analyze the distinct role played by individual chordae in closure of the mitral valve leaflets. Mitral closure was simulated for 51 possible chordal rupture points. Resultant regurgitant orifice area and strain change in the chordae at the papillary muscle tips were then calculated to examine the role of each ruptured chorda in the mitral valve closure. For certain subclassifications of chordae, regurgitant orifice area was found to trend positively with ruptured chordal diameter, and strain changes correlated negatively with regurgitant orifice area. Further advancements in clinical imaging modalities, coupled with the next generation of computational techniques will enable more physiologically realistic simulations. PMID:27624659

A 3D object-based model to simulate highly-heterogeneous, coarse, braided river deposits

NASA Astrophysics Data System (ADS)

Huber, E.; Huggenberger, P.; Caers, J.

2016-12-01

There is a critical need in hydrogeological modeling for geologically more realistic representation of the subsurface. Indeed, widely-used representations of the subsurface heterogeneity based on smooth basis functions such as cokriging or the pilot-point approach fail at reproducing the connectivity of high permeable geological structures that control subsurface solute transport. To realistically model the connectivity of high permeable structures of coarse, braided river deposits, multiple-point statistics and object-based models are promising alternatives. We therefore propose a new object-based model that, according to a sedimentological model, mimics the dominant processes of floodplain dynamics. Contrarily to existing models, this object-based model possesses the following properties: (1) it is consistent with field observations (outcrops, ground-penetrating radar data, etc.), (2) it allows different sedimentological dynamics to be modeled that result in different subsurface heterogeneity patterns, (3) it is light in memory and computationally fast, and (4) it can be conditioned to geophysical data. In this model, the main sedimentological elements (scour fills with open-framework-bimodal gravel cross-beds, gravel sheet deposits, open-framework and sand lenses) and their internal structures are described by geometrical objects. Several spatial distributions are proposed that allow to simulate the horizontal position of the objects on the floodplain as well as the net rate of sediment deposition. The model is grid-independent and any vertical section can be computed algebraically. Furthermore, model realizations can serve as training images for multiple-point statistics. The significance of this model is shown by its impact on the subsurface flow distribution that strongly depends on the sedimentological dynamics modeled. The code will be provided as a free and open-source R-package.

Three-dimensional printed ultrasound and photoacoustic training phantoms for vasculature access (Conference Presentation)

NASA Astrophysics Data System (ADS)

Nikitichev, Daniil I.; Xia, Wenfeng; West, Simeon J.; Desjardins, Adrien E.; Ourselin, Sebastien; Vercauteren, Tom

2017-03-01

Ultrasound (US) imaging is widely used to guide vascular access procedures such as arterial and venous cannulation. As needle visualisation with US imaging can be very challenging, it is easy to misplace the needle in the patient and it can be life threating. Photoacoustic (PA) imaging is well suited to image medical needles and catheters that are commonly used for vascular access. To improve the success rate, a certain level of proficiency is required that can be gained through extensive practice on phantoms. Unfortunately, commercial training phantoms are expensive and custom-made phantoms usually do not replicate the anatomy very well. Thus, there is a great demand for more realistic and affordable ultrasound and photoacoustic imaging phantoms for vasculature access procedures training. Three-dimensional (3D) printing can help create models that replicate complex anatomical geometries. However, the available 3D printed materials do not possess realistic tissue properties. Alternatively, tissue-mimicking materials can be employed using casting and 3D printed moulds but this approach is limited to the creation of realistic outer shapes with no replication of complex internal structures. In this study, we developed a realistic vasculature access phantom using a combination of mineral oil based materials as background tissue and a non-toxic, water dissolvable filament material to create complex vascular structure using 3D printing. US and PA images of the phantoms comprising the complex vasculature network were acquired. The results show that 3D printing can facilitate the fabrication of anatomically realistic training phantoms, with designs that can be customized and shared electronically.

Multiaxial and Thermomechanical Fatigue of Materials: A Historical Perspective and Some Future Challenges

NASA Technical Reports Server (NTRS)

Kalluri, Sreeramesh

2013-01-01

Structural materials used in engineering applications routinely subjected to repetitive mechanical loads in multiple directions under non-isothermal conditions. Over past few decades, several multiaxial fatigue life estimation models (stress- and strain-based) developed for isothermal conditions. Historically, numerous fatigue life prediction models also developed for thermomechanical fatigue (TMF) life prediction, predominantly for uniaxial mechanical loading conditions. Realistic structural components encounter multiaxial loads and non-isothermal loading conditions, which increase potential for interaction of damage modes. A need exists for mechanical testing and development verification of life prediction models under such conditions.

Brain networks, structural realism, and local approaches to the scientific realism debate.

PubMed

Yan, Karen; Hricko, Jonathon

2017-08-01

We examine recent work in cognitive neuroscience that investigates brain networks. Brain networks are characterized by the ways in which brain regions are functionally and anatomically connected to one another. Cognitive neuroscientists use various noninvasive techniques (e.g., fMRI) to investigate these networks. They represent them formally as graphs. And they use various graph theoretic techniques to analyze them further. We distinguish between knowledge of the graph theoretic structure of such networks (structural knowledge) and knowledge of what instantiates that structure (nonstructural knowledge). And we argue that this work provides structural knowledge of brain networks. We explore the significance of this conclusion for the scientific realism debate. We argue that our conclusion should not be understood as an instance of a global structural realist claim regarding the structure of the unobservable part of the world, but instead, as a local structural realist attitude towards brain networks in particular. And we argue that various local approaches to the realism debate, i.e., approaches that restrict realist commitments to particular theories and/or entities, are problematic insofar as they don't allow for the possibility of such a local structural realist attitude. Copyright © 2017 Elsevier Ltd. All rights reserved.

Interactive Physical Simulation of Catheter Motion within Mayor Vessel Structures and Cavities for ASD/VSD Treatment

NASA Astrophysics Data System (ADS)

Becherer, Nico; Hesser, Jürgen; Kornmesser, Ulrike; Schranz, Dietmar; Männer, Reinhard

2007-03-01

Simulation systems are becoming increasingly essential in medical education. Hereby, capturing the physical behaviour of the real world requires a sophisticated modelling of instruments within the virtual environment. Most models currently used are not capable of user interactive simulations due to the computation of the complex underlying analytical equations. Alternatives are often based on simplifying mass-spring systems, being able to deliver high update rates that come at the cost of less realistic motion. In addition, most techniques are limited to narrow and tubular vessel structures or restrict shape alterations to two degrees of freedom, not allowing instrument deformations like torsion. In contrast, our approach combines high update rates with highly realistic motion and can in addition be used with respect to arbitrary structures like vessels or cavities (e.g. atrium, ventricle) without limiting the degrees of freedom. Based on energy minimization, bending energies and vessel structures are considered as linear elastic elements; energies are evaluated at regularly spaced points on the instrument, while the distance of the points is fixed, i.e. we simulate an articulated structure of joints with fixed connections between them. Arbitrary tissue structures are modeled through adaptive distance fields and are connected by nodes via an undirected graph system. The instrument points are linked to nodes by a system of rules. Energy minimization uses a Quasi Newton method without preconditioning and, hereby, gradients are estimated using a combination of analytical and numerical terms. Results show a high quality in motion simulation when compared to a phantom model. The approach is also robust and fast. Simulating an instrument with 100 joints runs at 100 Hz on a 3 GHz PC.

Immersed boundary-finite element model of fluid-structure interaction in the aortic root

NASA Astrophysics Data System (ADS)

Flamini, Vittoria; DeAnda, Abe; Griffith, Boyce E.

2016-04-01

It has long been recognized that aortic root elasticity helps to ensure efficient aortic valve closure, but our understanding of the functional importance of the elasticity and geometry of the aortic root continues to evolve as increasingly detailed in vivo imaging data become available. Herein, we describe a fluid-structure interaction model of the aortic root, including the aortic valve leaflets, the sinuses of Valsalva, the aortic annulus, and the sinotubular junction, that employs a version of Peskin's immersed boundary (IB) method with a finite element description of the structural elasticity. As in earlier work, we use a fiber-based model of the valve leaflets, but this study extends earlier IB models of the aortic root by employing an incompressible hyperelastic model of the mechanics of the sinuses and ascending aorta using a constitutive law fit to experimental data from human aortic root tissue. In vivo pressure loading is accounted for by a backward displacement method that determines the unloaded configuration of the root model. Our model yields realistic cardiac output at physiological pressures, with low transvalvular pressure differences during forward flow, minimal regurgitation during valve closure, and realistic pressure loads when the valve is closed during diastole. Further, results from high-resolution computations indicate that although the detailed leaflet and root kinematics show some grid sensitivity, our IB model of the aortic root nonetheless produces essentially grid-converged flow rates and pressures at practical grid spacings for the high Reynolds number flows of the aortic root. These results thereby clarify minimum grid resolutions required by such models when used as stand-alone models of the aortic valve as well as when used to provide models of the outflow valves in models of left-ventricular fluid dynamics.

Is realistic neuronal modeling realistic?

PubMed Central

Almog, Mara

2016-01-01

Scientific models are abstractions that aim to explain natural phenomena. A successful model shows how a complex phenomenon arises from relatively simple principles while preserving major physical or biological rules and predicting novel experiments. A model should not be a facsimile of reality; it is an aid for understanding it. Contrary to this basic premise, with the 21st century has come a surge in computational efforts to model biological processes in great detail. Here we discuss the oxymoronic, realistic modeling of single neurons. This rapidly advancing field is driven by the discovery that some neurons don't merely sum their inputs and fire if the sum exceeds some threshold. Thus researchers have asked what are the computational abilities of single neurons and attempted to give answers using realistic models. We briefly review the state of the art of compartmental modeling highlighting recent progress and intrinsic flaws. We then attempt to address two fundamental questions. Practically, can we realistically model single neurons? Philosophically, should we realistically model single neurons? We use layer 5 neocortical pyramidal neurons as a test case to examine these issues. We subject three publically available models of layer 5 pyramidal neurons to three simple computational challenges. Based on their performance and a partial survey of published models, we conclude that current compartmental models are ad hoc, unrealistic models functioning poorly once they are stretched beyond the specific problems for which they were designed. We then attempt to plot possible paths for generating realistic single neuron models. PMID:27535372

Sonic Boom Modeling Technical Challenge

NASA Technical Reports Server (NTRS)

Sullivan, Brenda M.

2007-01-01

This viewgraph presentation reviews the technical challenges in modeling sonic booms. The goal of this program is to develop knowledge, capabilities and technologies to enable overland supersonic flight. The specific objectives of the modeling are: (1) Develop and validate sonic boom propagation model through realistic atmospheres, including effects of turbulence (2) Develop methods enabling prediction of response of and acoustic transmission into structures impacted by sonic booms (3) Develop and validate psychoacoustic model of human response to sonic booms under both indoor and outdoor listening conditions, using simulators.

A comparative study of approaches to compute the field distribution of deep brain stimulation in the Hemiparkinson rat model.

PubMed

Bohme, Andrea; van Rienen, Ursula

2016-08-01

Computational modeling of the stimulating field distribution during Deep Brain Stimulation provides an opportunity to advance our knowledge of this neurosurgical therapy for Parkinson's disease. There exist several approaches to model the target region for Deep Brain Stimulation in Hemi-parkinson Rats with volume conductor models. We have described and compared the normalized mapping approach as well as the modeling with three-dimensional structures, which include curvilinear coordinates to assure an anatomically realistic conductivity tensor orientation.

PPI4DOCK: large scale assessment of the use of homology models in free docking over more than 1000 realistic targets.

PubMed

Yu, Jinchao; Guerois, Raphaël

2016-12-15

Protein-protein docking methods are of great importance for understanding interactomes at the structural level. It has become increasingly appealing to use not only experimental structures but also homology models of unbound subunits as input for docking simulations. So far we are missing a large scale assessment of the success of rigid-body free docking methods on homology models. We explored how we could benefit from comparative modelling of unbound subunits to expand docking benchmark datasets. Starting from a collection of 3157 non-redundant, high X-ray resolution heterodimers, we developed the PPI4DOCK benchmark containing 1417 docking targets based on unbound homology models. Rigid-body docking by Zdock showed that for 1208 cases (85.2%), at least one correct decoy was generated, emphasizing the efficiency of rigid-body docking in generating correct assemblies. Overall, the PPI4DOCK benchmark contains a large set of realistic cases and provides new ground for assessing docking and scoring methodologies. Benchmark sets can be downloaded from http://biodev.cea.fr/interevol/ppi4dock/ CONTACT: guerois@cea.frSupplementary information: Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

User modeling techniques for enhanced usability of OPSMODEL operations simulation software

NASA Technical Reports Server (NTRS)

Davis, William T.

1991-01-01

The PC based OPSMODEL operations software for modeling and simulation of space station crew activities supports engineering and cost analyses and operations planning. Using top-down modeling, the level of detail required in the data base can be limited to being commensurate with the results required of any particular analysis. To perform a simulation, a resource environment consisting of locations, crew definition, equipment, and consumables is first defined. Activities to be simulated are then defined as operations and scheduled as desired. These operations are defined within a 1000 level priority structure. The simulation on OPSMODEL, then, consists of the following: user defined, user scheduled operations executing within an environment of user defined resource and priority constraints. Techniques for prioritizing operations to realistically model a representative daily scenario of on-orbit space station crew activities are discussed. The large number of priority levels allows priorities to be assigned commensurate with the detail necessary for a given simulation. Several techniques for realistic modeling of day-to-day work carryover are also addressed.

Integrated Turbine Tip Clearance and Gas Turbine Engine Simulation

NASA Technical Reports Server (NTRS)

Chapman, Jeffryes W.; Kratz, Jonathan; Guo, Ten-Huei; Litt, Jonathan

2016-01-01

Gas turbine compressor and turbine blade tip clearance (i.e., the radial distance between the blade tip of an axial compressor or turbine and the containment structure) is a major contributing factor to gas path sealing, and can significantly affect engine efficiency and operational temperature. This paper details the creation of a generic but realistic high pressure turbine tip clearance model that may be used to facilitate active tip clearance control system research. This model uses a first principles approach to approximate thermal and mechanical deformations of the turbine system, taking into account the rotor, shroud, and blade tip components. Validation of the tip clearance model shows that the results are realistic and reflect values found in literature. In addition, this model has been integrated with a gas turbine engine simulation, creating a platform to explore engine performance as tip clearance is adjusted. Results from the integrated model explore the effects of tip clearance on engine operation and highlight advantages of tip clearance management.

Conceptualizing the World of Work

ERIC Educational Resources Information Center

Van Rooy, William H.; Bailey, Larry J.

1973-01-01

The conceptual model described here has resulted from the need to organize a body of knowledge related to the world of work which would enable curriculum developers to prepare accurate, realistic instructional materials. The world of work is described by applying Malinowski's scientific study of the structural components of culture. (Author/DS)

An Improved Signal Model for Axion Dark Matter Searches

NASA Astrophysics Data System (ADS)

Lentz, Erik; ADMX Collaboration

2017-01-01

To date, most direct detection searches for axion dark matter, such as those by the Axion Dark Matter eXperiment (ADMX) microwave cavity search, have assumed a signal shape based on an isothermal spherical model of the Milky Way halo. Such a model is not capable of capturing contributions from realistic infall, nor from a baryonic disk. Modern N-Body simulations of structure formation can produce realistic Milky Way-like halos which include the influences of baryons, infall, and environmental influences. This talk presents an analysis of the Romulus25 N-Body simulation in the context of direct dark matter axion searches. An improved signal shape and an account of the relevant halo dynamics are given. Supported by DOE Grants DE-SC0010280, DE-FG02-96ER40956, DE-AC52-07NA27344, DE-AC03-76SF00098, the Heising-Simons Foundation and the LLNL, FNAL and PNNL LDRD program.

Order Matters: Sequencing Scale-Realistic Versus Simplified Models to Improve Science Learning

NASA Astrophysics Data System (ADS)

Chen, Chen; Schneps, Matthew H.; Sonnert, Gerhard

2016-10-01

Teachers choosing between different models to facilitate students' understanding of an abstract system must decide whether to adopt a model that is simplified and striking or one that is realistic and complex. Only recently have instructional technologies enabled teachers and learners to change presentations swiftly and to provide for learning based on multiple models, thus giving rise to questions about the order of presentation. Using disjoint individual growth modeling to examine the learning of astronomical concepts using a simulation of the solar system on tablets for 152 high school students (age 15), the authors detect both a model effect and an order effect in the use of the Orrery, a simplified model that exaggerates the scale relationships, and the True-to-scale, a proportional model that more accurately represents the realistic scale relationships. Specifically, earlier exposure to the simplified model resulted in diminution of the conceptual gain from the subsequent realistic model, but the realistic model did not impede learning from the following simplified model.

Quantifying structural uncertainty on fault networks using a marked point process within a Bayesian framework

NASA Astrophysics Data System (ADS)

Aydin, Orhun; Caers, Jef Karel

2017-08-01

Faults are one of the building-blocks for subsurface modeling studies. Incomplete observations of subsurface fault networks lead to uncertainty pertaining to location, geometry and existence of faults. In practice, gaps in incomplete fault network observations are filled based on tectonic knowledge and interpreter's intuition pertaining to fault relationships. Modeling fault network uncertainty with realistic models that represent tectonic knowledge is still a challenge. Although methods that address specific sources of fault network uncertainty and complexities of fault modeling exists, a unifying framework is still lacking. In this paper, we propose a rigorous approach to quantify fault network uncertainty. Fault pattern and intensity information are expressed by means of a marked point process, marked Strauss point process. Fault network information is constrained to fault surface observations (complete or partial) within a Bayesian framework. A structural prior model is defined to quantitatively express fault patterns, geometries and relationships within the Bayesian framework. Structural relationships between faults, in particular fault abutting relations, are represented with a level-set based approach. A Markov Chain Monte Carlo sampler is used to sample posterior fault network realizations that reflect tectonic knowledge and honor fault observations. We apply the methodology to a field study from Nankai Trough & Kumano Basin. The target for uncertainty quantification is a deep site with attenuated seismic data with only partially visible faults and many faults missing from the survey or interpretation. A structural prior model is built from shallow analog sites that are believed to have undergone similar tectonics compared to the site of study. Fault network uncertainty for the field is quantified with fault network realizations that are conditioned to structural rules, tectonic information and partially observed fault surfaces. We show the proposed methodology generates realistic fault network models conditioned to data and a conceptual model of the underlying tectonics.

3-D minimum-structure inversion of magnetotelluric data using the finite-element method and tetrahedral grids

NASA Astrophysics Data System (ADS)

Jahandari, H.; Farquharson, C. G.

2017-11-01

Unstructured grids enable representing arbitrary structures more accurately and with fewer cells compared to regular structured grids. These grids also allow more efficient refinements compared to rectilinear meshes. In this study, tetrahedral grids are used for the inversion of magnetotelluric (MT) data, which allows for the direct inclusion of topography in the model, for constraining an inversion using a wireframe-based geological model and for local refinement at the observation stations. A minimum-structure method with an iterative model-space Gauss-Newton algorithm for optimization is used. An iterative solver is employed for solving the normal system of equations at each Gauss-Newton step and the sensitivity matrix-vector products that are required by this solver are calculated using pseudo-forward problems. This method alleviates the need to explicitly form the Hessian or Jacobian matrices which significantly reduces the required computation memory. Forward problems are formulated using an edge-based finite-element approach and a sparse direct solver is used for the solutions. This solver allows saving and re-using the factorization of matrices for similar pseudo-forward problems within a Gauss-Newton iteration which greatly minimizes the computation time. Two examples are presented to show the capability of the algorithm: the first example uses a benchmark model while the second example represents a realistic geological setting with topography and a sulphide deposit. The data that are inverted are the full-tensor impedance and the magnetic transfer function vector. The inversions sufficiently recovered the models and reproduced the data, which shows the effectiveness of unstructured grids for complex and realistic MT inversion scenarios. The first example is also used to demonstrate the computational efficiency of the presented model-space method by comparison with its data-space counterpart.

A computational model for epidural electrical stimulation of spinal sensorimotor circuits.

PubMed

Capogrosso, Marco; Wenger, Nikolaus; Raspopovic, Stanisa; Musienko, Pavel; Beauparlant, Janine; Bassi Luciani, Lorenzo; Courtine, Grégoire; Micera, Silvestro

2013-12-04

Epidural electrical stimulation (EES) of lumbosacral segments can restore a range of movements after spinal cord injury. However, the mechanisms and neural structures through which EES facilitates movement execution remain unclear. Here, we designed a computational model and performed in vivo experiments to investigate the type of fibers, neurons, and circuits recruited in response to EES. We first developed a realistic finite element computer model of rat lumbosacral segments to identify the currents generated by EES. To evaluate the impact of these currents on sensorimotor circuits, we coupled this model with an anatomically realistic axon-cable model of motoneurons, interneurons, and myelinated afferent fibers for antagonistic ankle muscles. Comparisons between computer simulations and experiments revealed the ability of the model to predict EES-evoked motor responses over multiple intensities and locations. Analysis of the recruited neural structures revealed the lack of direct influence of EES on motoneurons and interneurons. Simulations and pharmacological experiments demonstrated that EES engages spinal circuits trans-synaptically through the recruitment of myelinated afferent fibers. The model also predicted the capacity of spatially distinct EES to modulate side-specific limb movements and, to a lesser extent, extension versus flexion. These predictions were confirmed during standing and walking enabled by EES in spinal rats. These combined results provide a mechanistic framework for the design of spinal neuroprosthetic systems to improve standing and walking after neurological disorders.

Episodes of Cross-Polar Transport in the Arctic Troposphere During July 2008 as Seen from Models, Satellite, and Aircraft Observations

NASA Technical Reports Server (NTRS)

Sodemann, H.; Pommier, M.; Arnold, S. R.; Monks, S. A.; Stebel, K.; Burkhart, J. F.; Hair, J. W.; Diskin, G. S.; Clerbaux, C.; Coheur, P.-F.;

Evaluation of simulation training in cardiothoracic surgery: the Senior Tour perspective.

PubMed

Fann, James I; Feins, Richard H; Hicks, George L; Nesbitt, Jonathan C; Hammon, John W; Crawford, Fred A

2012-02-01

The study objective was to introduce senior surgeons, referred to as members of the "Senior Tour," to simulation-based learning and evaluate ongoing simulation efforts in cardiothoracic surgery. Thirteen senior cardiothoracic surgeons participated in a 2½-day Senior Tour Meeting. Of 12 simulators, each participant focused on 6 cardiac (small vessel anastomosis, aortic cannulation, cardiopulmonary bypass, aortic valve replacement, mitral valve repair, and aortic root replacement) or 6 thoracic surgical simulators (hilar dissection, esophageal anastomosis, rigid bronchoscopy, video-assisted thoracoscopic surgery lobectomy, tracheal resection, and sleeve resection). The participants provided critical feedback regarding the realism and utility of the simulators, which served as the basis for a composite assessment of the simulators. All participants acknowledged that simulation may not provide a wholly immersive experience. For small vessel anastomosis, the portable chest model is less realistic compared with the porcine model, but is valuable in teaching anastomosis mechanics. The aortic cannulation model allows multiple cannulations and can serve as a thoracic aortic surgery model. The cardiopulmonary bypass simulator provides crisis management experience. The porcine aortic valve replacement, mitral valve annuloplasty, and aortic root models are realistic and permit standardized training. The hilar dissection model is subject to variability of porcine anatomy and fragility of the vascular structures. The realistic esophageal anastomosis simulator presents various approaches to esophageal anastomosis. The exercise associated with the rigid bronchoscopy model is brief, and adding additional procedures should be considered. The tracheal resection, sleeve resection, and video-assisted thoracoscopic surgery lobectomy models are highly realistic and simulate advanced maneuvers. By providing the necessary tools, such as task trainers and assessment instruments, the Senior Tour may be one means to enhance simulation-based learning in cardiothoracic surgery. The Senior Tour members can provide regular programmatic evaluation and critical analyses to ensure that proposed simulators are of educational value. Published by Mosby, Inc.

Effect of Anatomically Realistic Full-Head Model on Activation of Cortical Neurons in Subdural Cortical Stimulation—A Computational Study

NASA Astrophysics Data System (ADS)

Seo, Hyeon; Kim, Donghyeon; Jun, Sung Chan

2016-06-01

Electrical brain stimulation (EBS) is an emerging therapy for the treatment of neurological disorders, and computational modeling studies of EBS have been used to determine the optimal parameters for highly cost-effective electrotherapy. Recent notable growth in computing capability has enabled researchers to consider an anatomically realistic head model that represents the full head and complex geometry of the brain rather than the previous simplified partial head model (extruded slab) that represents only the precentral gyrus. In this work, subdural cortical stimulation (SuCS) was found to offer a better understanding of the differential activation of cortical neurons in the anatomically realistic full-head model than in the simplified partial-head models. We observed that layer 3 pyramidal neurons had comparable stimulation thresholds in both head models, while layer 5 pyramidal neurons showed a notable discrepancy between the models; in particular, layer 5 pyramidal neurons demonstrated asymmetry in the thresholds and action potential initiation sites in the anatomically realistic full-head model. Overall, the anatomically realistic full-head model may offer a better understanding of layer 5 pyramidal neuronal responses. Accordingly, the effects of using the realistic full-head model in SuCS are compelling in computational modeling studies, even though this modeling requires substantially more effort.

SMART-DS: Synthetic Models for Advanced, Realistic Testing: Distribution

Science.gov Websites

statistical summary of the U.S. distribution systems World-class, high spatial/temporal resolution of solar Systems and Scenarios | Grid Modernization | NREL SMART-DS: Synthetic Models for Advanced , Realistic Testing: Distribution Systems and Scenarios SMART-DS: Synthetic Models for Advanced, Realistic

A 4DCT imaging-based breathing lung model with relative hysteresis

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

Miyawaki, Shinjiro; Choi, Sanghun; Hoffman, Eric A.

To reproduce realistic airway motion and airflow, the authors developed a deforming lung computational fluid dynamics (CFD) model based on four-dimensional (4D, space and time) dynamic computed tomography (CT) images. A total of 13 time points within controlled tidal volume respiration were used to account for realistic and irregular lung motion in human volunteers. Because of the irregular motion of 4DCT-based airways, we identified an optimal interpolation method for airway surface deformation during respiration, and implemented a computational solid mechanics-based moving mesh algorithm to produce smooth deforming airway mesh. In addition, we developed physiologically realistic airflow boundary conditions for bothmore » models based on multiple images and a single image. Furthermore, we examined simplified models based on one or two dynamic or static images. By comparing these simplified models with the model based on 13 dynamic images, we investigated the effects of relative hysteresis of lung structure with respect to lung volume, lung deformation, and imaging methods, i.e., dynamic vs. static scans, on CFD-predicted pressure drop. The effect of imaging method on pressure drop was 24 percentage points due to the differences in airflow distribution and airway geometry. - Highlights: • We developed a breathing human lung CFD model based on 4D-dynamic CT images. • The 4DCT-based breathing lung model is able to capture lung relative hysteresis. • A new boundary condition for lung model based on one static CT image was proposed. • The difference between lung models based on 4D and static CT images was quantified.« less

Modeling of Relation between Transaction Network and Production Activity for Firms

NASA Astrophysics Data System (ADS)

Iino, T.; Iyetomi, H.

Bak et al. [Ricerche Economiche 47 (1993), 3] proposed a self-organizing model for production activity of interacting firms to illustrate how large fluctuations can be triggered by small independent shocks in aggregate economy. This paper develops the original transaction model based on a regular network with layered order flow to accommodate more realistic networks. Simulations in the generalized model so obtained are then carried out for various networks to examine the influence caused by change of the network structure.

Fantasy Play of Preschoolers as a Function of Toy Structures.

ERIC Educational Resources Information Center

Einsiedler, Wolfgang

Two studies are presented which investigate the influence of various toy structures on the frequency of individual fantasy play forms in 3- to 6-year-old children. In the first study, the effects of high-realistic/high-complexity and low-realistic/low-complexity toy structures were compared. There were significant main effects for the factor toy…

Cloud immersion building shielding factors for US residential structures.

PubMed

Dickson, E D; Hamby, D M

2014-12-01

This paper presents validated building shielding factors designed for contemporary US housing-stock under an idealized, yet realistic, exposure scenario within a semi-infinite cloud of radioactive material. The building shielding factors are intended for use in emergency planning and level three probabilistic risk assessments for a variety of postulated radiological events in which a realistic assessment is necessary to better understand the potential risks for accident mitigation and emergency response planning. Factors are calculated from detailed computational housing-units models using the general-purpose Monte Carlo N-Particle computational code, MCNP5, and are benchmarked from a series of narrow- and broad-beam measurements analyzing the shielding effectiveness of ten common general-purpose construction materials and ten shielding models representing the primary weather barriers (walls and roofs) of likely US housing-stock. Each model was designed to scale based on common residential construction practices and include, to the extent practical, all structurally significant components important for shielding against ionizing radiation. Calculations were performed for floor-specific locations as well as for computing a weighted-average representative building shielding factor for single- and multi-story detached homes, both with and without basement, as well for single-wide manufactured housing-units.

Comparative hazard analysis and toxicological modeling of diverse nanomaterials using the embryonic zebrafish (EZ) metric of toxicity

NASA Astrophysics Data System (ADS)

Harper, Bryan; Thomas, Dennis; Chikkagoudar, Satish; Baker, Nathan; Tang, Kaizhi; Heredia-Langner, Alejandro; Lins, Roberto; Harper, Stacey

2015-06-01

The integration of rapid assays, large datasets, informatics, and modeling can overcome current barriers in understanding nanomaterial structure-toxicity relationships by providing a weight-of-the-evidence mechanism to generate hazard rankings for nanomaterials. Here, we present the use of a rapid, low-cost assay to perform screening-level toxicity evaluations of nanomaterials in vivo. Calculated EZ Metric scores, a combined measure of morbidity and mortality in developing embryonic zebrafish, were established at realistic exposure levels and used to develop a hazard ranking of diverse nanomaterial toxicity. Hazard ranking and clustering analysis of 68 diverse nanomaterials revealed distinct patterns of toxicity related to both the core composition and outermost surface chemistry of nanomaterials. The resulting clusters guided the development of a surface chemistry-based model of gold nanoparticle toxicity. Our findings suggest that risk assessments based on the size and core composition of nanomaterials alone may be wholly inappropriate, especially when considering complex engineered nanomaterials. Research should continue to focus on methodologies for determining nanomaterial hazard based on multiple sub-lethal responses following realistic, low-dose exposures, thus increasing the availability of quantitative measures of nanomaterial hazard to support the development of nanoparticle structure-activity relationships.

Resting-State Functional Connectivity Emerges from Structurally and Dynamically Shaped Slow Linear Fluctuations

PubMed Central

Deco, Gustavo; Mantini, Dante; Romani, Gian Luca; Hagmann, Patric; Corbetta, Maurizio

2013-01-01

Brain fluctuations at rest are not random but are structured in spatial patterns of correlated activity across different brain areas. The question of how resting-state functional connectivity (FC) emerges from the brain's anatomical connections has motivated several experimental and computational studies to understand structure–function relationships. However, the mechanistic origin of resting state is obscured by large-scale models' complexity, and a close structure–function relation is still an open problem. Thus, a realistic but simple enough description of relevant brain dynamics is needed. Here, we derived a dynamic mean field model that consistently summarizes the realistic dynamics of a detailed spiking and conductance-based synaptic large-scale network, in which connectivity is constrained by diffusion imaging data from human subjects. The dynamic mean field approximates the ensemble dynamics, whose temporal evolution is dominated by the longest time scale of the system. With this reduction, we demonstrated that FC emerges as structured linear fluctuations around a stable low firing activity state close to destabilization. Moreover, the model can be further and crucially simplified into a set of motion equations for statistical moments, providing a direct analytical link between anatomical structure, neural network dynamics, and FC. Our study suggests that FC arises from noise propagation and dynamical slowing down of fluctuations in an anatomically constrained dynamical system. Altogether, the reduction from spiking models to statistical moments presented here provides a new framework to explicitly understand the building up of FC through neuronal dynamics underpinned by anatomical connections and to drive hypotheses in task-evoked studies and for clinical applications. PMID:23825427

On the role of heat flow, lithosphere thickness and lithosphere density on gravitational potential stresses

NASA Astrophysics Data System (ADS)

Pascal, Christophe

2006-10-01

Gravitational potential stresses (GPSt) are known to play a first-order role in the state of stress of the Earth's lithosphere. Previous studies focussed mainly on crust elevation and structure and little attention has been paid to modelling GPSt using realistic lithospheric structures. The aim of the present contribution is to quantify gravitational potential energies and stresses associated with stable lithospheric domains. In order to model realistic lithosphere structures, a wide variety of data are considered: surface heat flow, chemical depletion of mantle lithosphere, crustal thickness and elevation. A numerical method is presented which involves classical steady-state heat equations to derive lithosphere thickness, geotherm and density distribution, but additionally requires the studied lithosphere to be isostatically compensated at its base. The impact of varying surface and crustal heat flow, topography, Moho depth and crust density on the signs and magnitudes of predicted GPSt is systematically explored. In clear contrast with what is assumed in most previous studies, modelling results show that the density structure of the mantle lithosphere has a significant impact on the value of the predicted GPSt, in particular in the case of thick lithospheres. Using independent information from the literature, the method was applied to get insights in the state of stress of continental domains with contrasting tectono-thermal ages. The modelling results suggest that in the absence of tectonic stresses Phanerozoic and Proterozoic lithospheres are spontaneously submitted to compression whereas Archean lithospheres are in a neutral to slightly tensile stress state. These findings are in general in good agreement with global stress measurements and observed geoid undulations.

[The research on bidirectional reflectance computer simulation of forest canopy at pixel scale].

PubMed

Song, Jin-Ling; Wang, Jin-Di; Shuai, Yan-Min; Xiao, Zhi-Qiang

2009-08-01

Computer simulation is based on computer graphics to generate the realistic 3D structure scene of vegetation, and to simulate the canopy regime using radiosity method. In the present paper, the authors expand the computer simulation model to simulate forest canopy bidirectional reflectance at pixel scale. But usually, the trees are complex structures, which are tall and have many branches. So there is almost a need for hundreds of thousands or even millions of facets to built up the realistic structure scene for the forest It is difficult for the radiosity method to compute so many facets. In order to make the radiosity method to simulate the forest scene at pixel scale, in the authors' research, the authors proposed one idea to simplify the structure of forest crowns, and abstract the crowns to ellipsoids. And based on the optical characteristics of the tree component and the characteristics of the internal energy transmission of photon in real crown, the authors valued the optical characteristics of ellipsoid surface facets. In the computer simulation of the forest, with the idea of geometrical optics model, the gap model is considered to get the forest canopy bidirectional reflectance at pixel scale. Comparing the computer simulation results with the GOMS model, and Multi-angle Imaging SpectroRadiometer (MISR) multi-angle remote sensing data, the simulation results are in agreement with the GOMS simulation result and MISR BRF. But there are also some problems to be solved. So the authors can conclude that the study has important value for the application of multi-angle remote sensing and the inversion of vegetation canopy structure parameters.

Structural modeling of Ge6.25As32.5Se61.25 using a combination of reverse Monte Carlo and Ab initio molecular dynamics.

PubMed

Opletal, George; Drumm, Daniel W; Wang, Rong P; Russo, Salvy P

2014-07-03

Ternary glass structures are notoriously difficult to model accurately, and yet prevalent in several modern endeavors. Here, a novel combination of Reverse Monte Carlo (RMC) modeling and ab initio molecular dynamics (MD) is presented, rendering these complicated structures computationally tractable. A case study (Ge6.25As32.5Se61.25 glass) illustrates the effects of ab initio MD quench rates and equilibration temperatures, and the combined approach's efficacy over standard RMC or random insertion methods. Submelting point MD quenches achieve the most stable, realistic models, agreeing with both experimental and fully ab initio results. The simple approach of RMC followed by ab initio geometry optimization provides similar quality to the RMC-MD combination, for far fewer resources.

Simulation studies of the application of SEASAT data in weather and state of sea forecasting models

NASA Technical Reports Server (NTRS)

Cardone, V. J.; Greenwood, J. A.

1979-01-01

The design and analysis of SEASAT simulation studies in which the error structure of conventional analyses and forecasts is modeled realistically are presented. The development and computer implementation of a global spectral ocean wave model is described. The design of algorithms for the assimilation of theoretical wind data into computers and for the utilization of real wind data and wave height data in a coupled computer system are presented.

A model based bayesian solution for characterization of complex damage scenarios in aerospace composite structures.

PubMed

Reed, H; Leckey, Cara A C; Dick, A; Harvey, G; Dobson, J

2018-01-01

Ultrasonic damage detection and characterization is commonly used in nondestructive evaluation (NDE) of aerospace composite components. In recent years there has been an increased development of guided wave based methods. In real materials and structures, these dispersive waves result in complicated behavior in the presence of complex damage scenarios. Model-based characterization methods utilize accurate three dimensional finite element models (FEMs) of guided wave interaction with realistic damage scenarios to aid in defect identification and classification. This work describes an inverse solution for realistic composite damage characterization by comparing the wavenumber-frequency spectra of experimental and simulated ultrasonic inspections. The composite laminate material properties are first verified through a Bayesian solution (Markov chain Monte Carlo), enabling uncertainty quantification surrounding the characterization. A study is undertaken to assess the efficacy of the proposed damage model and comparative metrics between the experimental and simulated output. The FEM is then parameterized with a damage model capable of describing the typical complex damage created by impact events in composites. The damage is characterized through a transdimensional Markov chain Monte Carlo solution, enabling a flexible damage model capable of adapting to the complex damage geometry investigated here. The posterior probability distributions of the individual delamination petals as well as the overall envelope of the damage site are determined. Copyright © 2017 Elsevier B.V. All rights reserved.

Challenges of NDE Simulation Tool Challenges of NDE Simulation Tool

NASA Technical Reports Server (NTRS)

Leckey, Cara A. C.; Juarez, Peter D.; Seebo, Jeffrey P.; Frank, Ashley L.

2015-01-01

Realistic nondestructive evaluation (NDE) simulation tools enable inspection optimization and predictions of inspectability for new aerospace materials and designs. NDE simulation tools may someday aid in the design and certification of advanced aerospace components; potentially shortening the time from material development to implementation by industry and government. Furthermore, modeling and simulation are expected to play a significant future role in validating the capabilities and limitations of guided wave based structural health monitoring (SHM) systems. The current state-of-the-art in ultrasonic NDE/SHM simulation cannot rapidly simulate damage detection techniques for large scale, complex geometry composite components/vehicles with realistic damage types. This paper discusses some of the challenges of model development and validation for composites, such as the level of realism and scale of simulation needed for NASA' applications. Ongoing model development work is described along with examples of model validation studies. The paper will also discuss examples of the use of simulation tools at NASA to develop new damage characterization methods, and associated challenges of validating those methods.

Six-degree-of-freedom aircraft simulation with mixed-data structure using the applied dynamics simulation language, ADSIM

NASA Technical Reports Server (NTRS)

Savaglio, Clare

1989-01-01

A realistic simulation of an aircraft in the flight using the AD 100 digital computer is presented. The implementation of three model features is specifically discussed: (1) a large aerodynamic data base (130,00 function values) which is evaluated using function interpolation to obtain the aerodynamic coefficients; (2) an option to trim the aircraft in longitudinal flight; and (3) a flight control system which includes a digital controller. Since the model includes a digital controller the simulation implements not only continuous time equations but also discrete time equations, thus the model has a mixed-data structure.

Residue length and solvation model dependency of elastinlike polypeptides

NASA Astrophysics Data System (ADS)

Bilsel, Mustafa; Arkin, Handan

2010-05-01

We have performed exhaustive multicanonical Monte Carlo simulations of elastinlike polypeptides with a chain including amino acids (valine-proline-glycine-valine-glycine)n or in short (VPGVG)n , where n changes from 1 to 4, in order to investigate the thermodynamic and structural properties. To predict the characteristic secondary structure motifs of the molecules, Ramachandran plots were prepared and analyzed as well. In these studies, we utilized a realistic model where the interactions between all types of atoms were taken into account. Effects of solvation were also simulated by using an implicit-solvent model with two commonly used solvation parameter sets and compared with the vacuum case.

Structural and elastic properties of InX (X = P, As, Sb) at pressure and room temperature

NASA Astrophysics Data System (ADS)

Pawar, Pooja; Singh, Sadhna

2018-06-01

We have investigated the pressure-induced phase transition of InX (X = P, As, Sb) from Zinc-Blende (ZB) to NaCl structure by using realistic interaction potential model involving the effect of temperature. This model consists of Coulomb interaction, three-body interaction and short-range overlap repulsive interaction upto the second nearest neighbor involving temperature. Phase-transition pressure is associated with a sudden collapse in volume, showing the incidence of first-order phase transition. The phase-transition pressure is associated with volume collapses, and the elastic constants obtained from the present model indicate good agreement with the available experimental and theoretical data.

Active control of interior noise in model aircraft fuselages using piezoceramic actuators

NASA Technical Reports Server (NTRS)

Fuller, C. R.; Hansen, C. H.; Silcox, R. J.; Snyder, S. D.

1990-01-01

Active control of interior noise in model aircraft fuselages using piezoceramic actuators is experimentally studied. The actuators are bonded directly to the structure and error information is taken from up to two microphones located in the interior acoustic field. The results demonstrate that global attenuation of the order of 10 to 15 dB of interior noise can be achieved with piezoceramic actuators, irrespective of whether the shell system is vibrating at an acoustic or structural resonant frequency. The work also proves that active control using vibration (moment) inputs works well when a floor simulating that of an aircraft is installed in the model. This result suggests that the technique will be successful in controlling interior noise in realistic aircraft structures.

Stability analysis of magnetized neutron stars - a semi-analytic approach

NASA Astrophysics Data System (ADS)

Herbrik, Marlene; Kokkotas, Kostas D.

2017-04-01

We implement a semi-analytic approach for stability analysis, addressing the ongoing uncertainty about stability and structure of neutron star magnetic fields. Applying the energy variational principle, a model system is displaced from its equilibrium state. The related energy density variation is set up analytically, whereas its volume integration is carried out numerically. This facilitates the consideration of more realistic neutron star characteristics within the model compared to analytical treatments. At the same time, our method retains the possibility to yield general information about neutron star magnetic field and composition structures that are likely to be stable. In contrast to numerical studies, classes of parametrized systems can be studied at once, finally constraining realistic configurations for interior neutron star magnetic fields. We apply the stability analysis scheme on polytropic and non-barotropic neutron stars with toroidal, poloidal and mixed fields testing their stability in a Newtonian framework. Furthermore, we provide the analytical scheme for dropping the Cowling approximation in an axisymmetric system and investigate its impact. Our results confirm the instability of simple magnetized neutron star models as well as a stabilization tendency in the case of mixed fields and stratification. These findings agree with analytical studies whose spectrum of model systems we extend by lifting former simplifications.

Realistic modeling of neurons and networks: towards brain simulation.

PubMed

D'Angelo, Egidio; Solinas, Sergio; Garrido, Jesus; Casellato, Claudia; Pedrocchi, Alessandra; Mapelli, Jonathan; Gandolfi, Daniela; Prestori, Francesca

2013-01-01

Realistic modeling is a new advanced methodology for investigating brain functions. Realistic modeling is based on a detailed biophysical description of neurons and synapses, which can be integrated into microcircuits. The latter can, in turn, be further integrated to form large-scale brain networks and eventually to reconstruct complex brain systems. Here we provide a review of the realistic simulation strategy and use the cerebellar network as an example. This network has been carefully investigated at molecular and cellular level and has been the object of intense theoretical investigation. The cerebellum is thought to lie at the core of the forward controller operations of the brain and to implement timing and sensory prediction functions. The cerebellum is well described and provides a challenging field in which one of the most advanced realistic microcircuit models has been generated. We illustrate how these models can be elaborated and embedded into robotic control systems to gain insight into how the cellular properties of cerebellar neurons emerge in integrated behaviors. Realistic network modeling opens up new perspectives for the investigation of brain pathologies and for the neurorobotic field.

Realistic modeling of neurons and networks: towards brain simulation

PubMed Central

D’Angelo, Egidio; Solinas, Sergio; Garrido, Jesus; Casellato, Claudia; Pedrocchi, Alessandra; Mapelli, Jonathan; Gandolfi, Daniela; Prestori, Francesca

Summary Realistic modeling is a new advanced methodology for investigating brain functions. Realistic modeling is based on a detailed biophysical description of neurons and synapses, which can be integrated into microcircuits. The latter can, in turn, be further integrated to form large-scale brain networks and eventually to reconstruct complex brain systems. Here we provide a review of the realistic simulation strategy and use the cerebellar network as an example. This network has been carefully investigated at molecular and cellular level and has been the object of intense theoretical investigation. The cerebellum is thought to lie at the core of the forward controller operations of the brain and to implement timing and sensory prediction functions. The cerebellum is well described and provides a challenging field in which one of the most advanced realistic microcircuit models has been generated. We illustrate how these models can be elaborated and embedded into robotic control systems to gain insight into how the cellular properties of cerebellar neurons emerge in integrated behaviors. Realistic network modeling opens up new perspectives for the investigation of brain pathologies and for the neurorobotic field. PMID:24139652

Image-based models of cardiac structure in health and disease

PubMed Central

Vadakkumpadan, Fijoy; Arevalo, Hermenegild; Prassl, Anton J.; Chen, Junjie; Kickinger, Ferdinand; Kohl, Peter; Plank, Gernot; Trayanova, Natalia

2010-01-01

Computational approaches to investigating the electromechanics of healthy and diseased hearts are becoming essential for the comprehensive understanding of cardiac function. In this article, we first present a brief review of existing image-based computational models of cardiac structure. We then provide a detailed explanation of a processing pipeline which we have recently developed for constructing realistic computational models of the heart from high resolution structural and diffusion tensor (DT) magnetic resonance (MR) images acquired ex vivo. The presentation of the pipeline incorporates a review of the methodologies that can be used to reconstruct models of cardiac structure. In this pipeline, the structural image is segmented to reconstruct the ventricles, normal myocardium, and infarct. A finite element mesh is generated from the segmented structural image, and fiber orientations are assigned to the elements based on DTMR data. The methods were applied to construct seven different models of healthy and diseased hearts. These models contain millions of elements, with spatial resolutions in the order of hundreds of microns, providing unprecedented detail in the representation of cardiac structure for simulation studies. PMID:20582162

Shape coexistence, shape evolution and Gamow-Teller {beta}-decay of neutron-rich A Asymptotically-Equal-To 100 nuclei

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

Petrovici, A.; Schmid, K. W.; Faessler, A.

The structure of neutron-rich nuclei in the A Asymptotically-Equal-To 100 mass region relevant for the astrophysical r process manifests drastic changes in some isotopic chains and often sudden variations of particular nuclear properties have been identified. For a realistic description of the evolution in structure with increasing energy, spin, and isospin determined by shape coexistence and mixing beyond-mean-field approaches are required. Our recent studies represent an attempt to the self-consistent description of the shape coexistence phenomena in neutron-rich A Asymptotically-Equal-To 100 nuclei within the complex Excited Vampir variational model with symmetry projection before variation using a realistic effective interaction basedmore » on the Bonn A potential in a large model space. Results concerning the triple shape coexistence and the shape evolution in the N=58 Sr and Zr isotopes, the shape evolution in a chain of Zr nuclei, as well as the Gamow-Teller {beta}-decay properties of neutron-rich Zr and Tc nuclei are presented.« less

3D ELECTRON DENSITY DISTRIBUTIONS IN THE SOLAR CORONA DURING SOLAR MINIMA: ASSESSMENT FOR MORE REALISTIC SOLAR WIND MODELING

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

Patoul, Judith de; Foullon, Claire; Riley, Pete, E-mail: j.depatoul@exeter.ac.uk, E-mail: c.foullon@exeter.ac.uk, E-mail: rileype@saic.com

Knowledge of the electron density distribution in the solar corona put constraints on the magnetic field configurations for coronal modeling and on initial conditions for solar wind modeling. We work with polarized SOHO/LASCO-C2 images from the last two recent minima of solar activity (1996–1997 and 2008–2010), devoid of coronal mass ejections. The goals are to derive the 4D electron density distributions in the corona by applying a newly developed time-dependent tomographic reconstruction method and to compare the results between the two solar minima and with two magnetohydrodynamic models. First, we confirm that the values of the density distribution in thermodynamic models aremore » more realistic than in polytropic ones. The tomography provides more accurate distributions in the polar regions, and we find that the density in tomographic and thermodynamic solutions varies with the solar cycle in both polar and equatorial regions. Second, we find that the highest-density structures do not always correspond to the predicted large-scale heliospheric current sheet or its helmet streamer but can follow the locations of pseudo-streamers. We deduce that tomography offers reliable density distributions in the corona, reproducing the slow time evolution of coronal structures, without prior knowledge of the coronal magnetic field over a full rotation. Finally, we suggest that the highest-density structures show a differential rotation well above the surface depending on how they are magnetically connected to the surface. Such valuable information on the rotation of large-scale structures could help to connect the sources of the solar wind to their in situ counterparts in future missions such as Solar Orbiter and Solar Probe Plus.« less

Theoretical and experimental investigation of architected core materials incorporating negative stiffness elements

NASA Astrophysics Data System (ADS)

Chang, Chia-Ming; Keefe, Andrew; Carter, William B.; Henry, Christopher P.; McKnight, Geoff P.

2014-04-01

Structural assemblies incorporating negative stiffness elements have been shown to provide both tunable damping properties and simultaneous high stiffness and damping over prescribed displacement regions. In this paper we explore the design space for negative stiffness based assemblies using analytical modeling combined with finite element analysis. A simplified spring model demonstrates the effects of element stiffness, geometry, and preloads on the damping and stiffness performance. Simplified analytical models were validated for realistic structural implementations through finite element analysis. A series of complementary experiments was conducted to compare with modeling and determine the effects of each element on the system response. The measured damping performance follows the theoretical predictions obtained by analytical modeling. We applied these concepts to a novel sandwich core structure that exhibited combined stiffness and damping properties 8 times greater than existing foam core technologies.

Observed and modeled patterns of covariability between low-level cloudiness and the structure of the trade-wind layer

DOE PAGES

Nuijens, Louise; Medeiros, Brian; Sandu, Irina; ...

2015-11-06

We present patterns of covariability between low-level cloudiness and the trade-wind boundary layer structure using long-term measurements at a site representative of dynamical regimes with moderate subsidence or weak ascent. We compare these with ECMWF’s Integrated Forecast System and 10 CMIP5 models. By using single-time step output at a single location, we find that models can produce a fairly realistic trade-wind layer structure in long-term means, but with unrealistic variability at shorter-time scales. The unrealistic variability in modeled cloudiness near the lifting condensation level (LCL) is due to stronger than observed relationships with mixed-layer relative humidity (RH) and temperature stratificationmore » at the mixed-layer top. Those relationships are weak in observations, or even of opposite sign, which can be explained by a negative feedback of convection on cloudiness. Cloudiness near cumulus tops at the tradewind inversion instead varies more pronouncedly in observations on monthly time scales, whereby larger cloudiness relates to larger surface winds and stronger trade-wind inversions. However, these parameters appear to be a prerequisite, rather than strong controlling factors on cloudiness, because they do not explain submonthly variations in cloudiness. Models underestimate the strength of these relationships and diverge in particular in their responses to large-scale vertical motion. No model stands out by reproducing the observed behavior in all respects. As a result, these findings suggest that climate models do not realistically represent the physical processes that underlie the coupling between trade-wind clouds and their environments in present-day climate, which is relevant for how we interpret modeled cloud feedbacks.« less

Observed and modeled patterns of covariability between low-level cloudiness and the structure of the trade-wind layer

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

Nuijens, Louise; Medeiros, Brian; Sandu, Irina

We present patterns of covariability between low-level cloudiness and the trade-wind boundary layer structure using long-term measurements at a site representative of dynamical regimes with moderate subsidence or weak ascent. We compare these with ECMWF’s Integrated Forecast System and 10 CMIP5 models. By using single-time step output at a single location, we find that models can produce a fairly realistic trade-wind layer structure in long-term means, but with unrealistic variability at shorter-time scales. The unrealistic variability in modeled cloudiness near the lifting condensation level (LCL) is due to stronger than observed relationships with mixed-layer relative humidity (RH) and temperature stratificationmore » at the mixed-layer top. Those relationships are weak in observations, or even of opposite sign, which can be explained by a negative feedback of convection on cloudiness. Cloudiness near cumulus tops at the tradewind inversion instead varies more pronouncedly in observations on monthly time scales, whereby larger cloudiness relates to larger surface winds and stronger trade-wind inversions. However, these parameters appear to be a prerequisite, rather than strong controlling factors on cloudiness, because they do not explain submonthly variations in cloudiness. Models underestimate the strength of these relationships and diverge in particular in their responses to large-scale vertical motion. No model stands out by reproducing the observed behavior in all respects. As a result, these findings suggest that climate models do not realistically represent the physical processes that underlie the coupling between trade-wind clouds and their environments in present-day climate, which is relevant for how we interpret modeled cloud feedbacks.« less

Combining cell-based hydrodynamics with hybrid particle-field simulations: efficient and realistic simulation of structuring dynamics.

PubMed

Sevink, G J A; Schmid, F; Kawakatsu, T; Milano, G

2017-02-22

We have extended an existing hybrid MD-SCF simulation technique that employs a coarsening step to enhance the computational efficiency of evaluating non-bonded particle interactions. This technique is conceptually equivalent to the single chain in mean-field (SCMF) method in polymer physics, in the sense that non-bonded interactions are derived from the non-ideal chemical potential in self-consistent field (SCF) theory, after a particle-to-field projection. In contrast to SCMF, however, MD-SCF evolves particle coordinates by the usual Newton's equation of motion. Since collisions are seriously affected by the softening of non-bonded interactions that originates from their evaluation at the coarser continuum level, we have devised a way to reinsert the effect of collisions on the structural evolution. Merging MD-SCF with multi-particle collision dynamics (MPCD), we mimic particle collisions at the level of computational cells and at the same time properly account for the momentum transfer that is important for a realistic system evolution. The resulting hybrid MD-SCF/MPCD method was validated for a particular coarse-grained model of phospholipids in aqueous solution, against reference full-particle simulations and the original MD-SCF model. We additionally implemented and tested an alternative and more isotropic finite difference gradient. Our results show that efficiency is improved by merging MD-SCF with MPCD, as properly accounting for hydrodynamic interactions considerably speeds up the phase separation dynamics, with negligible additional computational costs compared to efficient MD-SCF. This new method enables realistic simulations of large-scale systems that are needed to investigate the applications of self-assembled structures of lipids in nanotechnologies.

Geometrical force constraint method for vessel and x-ray angiogram simulation.

PubMed

Song, Shuang; Yang, Jian; Fan, Jingfan; Cong, Weijian; Ai, Danni; Zhao, Yitian; Wang, Yongtian

2016-01-01

This study proposes a novel geometrical force constraint method for 3-D vasculature modeling and angiographic image simulation. For this method, space filling force, gravitational force, and topological preserving force are proposed and combined for the optimization of the topology of the vascular structure. The surface covering force and surface adhesion force are constructed to drive the growth of the vasculature on any surface. According to the combination effects of the topological and surface adhering forces, a realistic vasculature can be effectively simulated on any surface. The image projection of the generated 3-D vascular structures is simulated according to the perspective projection and energy attenuation principles of X-rays. Finally, the simulated projection vasculature is fused with a predefined angiographic mask image to generate a realistic angiogram. The proposed method is evaluated on a CT image and three generally utilized surfaces. The results fully demonstrate the effectiveness and robustness of the proposed method.

Improving Forecasts Through Realistic Uncertainty Estimates: A Novel Data Driven Method for Model Uncertainty Quantification in Data Assimilation

NASA Astrophysics Data System (ADS)

Pathiraja, S. D.; Moradkhani, H.; Marshall, L. A.; Sharma, A.; Geenens, G.

2016-12-01

Effective combination of model simulations and observations through Data Assimilation (DA) depends heavily on uncertainty characterisation. Many traditional methods for quantifying model uncertainty in DA require some level of subjectivity (by way of tuning parameters or by assuming Gaussian statistics). Furthermore, the focus is typically on only estimating the first and second moments. We propose a data-driven methodology to estimate the full distributional form of model uncertainty, i.e. the transition density p(xt|xt-1). All sources of uncertainty associated with the model simulations are considered collectively, without needing to devise stochastic perturbations for individual components (such as model input, parameter and structural uncertainty). A training period is used to derive the distribution of errors in observed variables conditioned on hidden states. Errors in hidden states are estimated from the conditional distribution of observed variables using non-linear optimization. The theory behind the framework and case study applications are discussed in detail. Results demonstrate improved predictions and more realistic uncertainty bounds compared to a standard perturbation approach.

Probabilistic Models and Generative Neural Networks: Towards an Unified Framework for Modeling Normal and Impaired Neurocognitive Functions

PubMed Central

Testolin, Alberto; Zorzi, Marco

2016-01-01

Connectionist models can be characterized within the more general framework of probabilistic graphical models, which allow to efficiently describe complex statistical distributions involving a large number of interacting variables. This integration allows building more realistic computational models of cognitive functions, which more faithfully reflect the underlying neural mechanisms at the same time providing a useful bridge to higher-level descriptions in terms of Bayesian computations. Here we discuss a powerful class of graphical models that can be implemented as stochastic, generative neural networks. These models overcome many limitations associated with classic connectionist models, for example by exploiting unsupervised learning in hierarchical architectures (deep networks) and by taking into account top-down, predictive processing supported by feedback loops. We review some recent cognitive models based on generative networks, and we point out promising research directions to investigate neuropsychological disorders within this approach. Though further efforts are required in order to fill the gap between structured Bayesian models and more realistic, biophysical models of neuronal dynamics, we argue that generative neural networks have the potential to bridge these levels of analysis, thereby improving our understanding of the neural bases of cognition and of pathologies caused by brain damage. PMID:27468262

Probabilistic Models and Generative Neural Networks: Towards an Unified Framework for Modeling Normal and Impaired Neurocognitive Functions.

PubMed

Testolin, Alberto; Zorzi, Marco

2016-01-01

Connectionist models can be characterized within the more general framework of probabilistic graphical models, which allow to efficiently describe complex statistical distributions involving a large number of interacting variables. This integration allows building more realistic computational models of cognitive functions, which more faithfully reflect the underlying neural mechanisms at the same time providing a useful bridge to higher-level descriptions in terms of Bayesian computations. Here we discuss a powerful class of graphical models that can be implemented as stochastic, generative neural networks. These models overcome many limitations associated with classic connectionist models, for example by exploiting unsupervised learning in hierarchical architectures (deep networks) and by taking into account top-down, predictive processing supported by feedback loops. We review some recent cognitive models based on generative networks, and we point out promising research directions to investigate neuropsychological disorders within this approach. Though further efforts are required in order to fill the gap between structured Bayesian models and more realistic, biophysical models of neuronal dynamics, we argue that generative neural networks have the potential to bridge these levels of analysis, thereby improving our understanding of the neural bases of cognition and of pathologies caused by brain damage.

Status of DSMT research program

NASA Technical Reports Server (NTRS)

Mcgowan, Paul E.; Javeed, Mehzad; Edighoffer, Harold H.

1991-01-01

The status of the Dynamic Scale Model Technology (DSMT) research program is presented. DSMT is developing scale model technology for large space structures as part of the Control Structure Interaction (CSI) program at NASA Langley Research Center (LaRC). Under DSMT a hybrid-scale structural dynamics model of Space Station Freedom was developed. Space Station Freedom was selected as the focus structure for DSMT since the station represents the first opportunity to obtain flight data on a complex, three-dimensional space structure. Included is an overview of DSMT including the development of the space station scale model and the resulting hardware. Scaling technology was developed for this model to achieve a ground test article which existing test facilities can accommodate while employing realistically scaled hardware. The model was designed and fabricated by the Lockheed Missile and Space Co., and is assembled at LaRc for dynamic testing. Also, results from ground tests and analyses of the various model components are presented along with plans for future subassembly and matted model tests. Finally, utilization of the scale model for enhancing analysis verification of the full-scale space station is also considered.

A Generative Angular Model of Protein Structure Evolution

PubMed Central

Golden, Michael; García-Portugués, Eduardo; Sørensen, Michael; Mardia, Kanti V.; Hamelryck, Thomas; Hein, Jotun

2017-01-01

Abstract Recently described stochastic models of protein evolution have demonstrated that the inclusion of structural information in addition to amino acid sequences leads to a more reliable estimation of evolutionary parameters. We present a generative, evolutionary model of protein structure and sequence that is valid on a local length scale. The model concerns the local dependencies between sequence and structure evolution in a pair of homologous proteins. The evolutionary trajectory between the two structures in the protein pair is treated as a random walk in dihedral angle space, which is modeled using a novel angular diffusion process on the two-dimensional torus. Coupling sequence and structure evolution in our model allows for modeling both “smooth” conformational changes and “catastrophic” conformational jumps, conditioned on the amino acid changes. The model has interpretable parameters and is comparatively more realistic than previous stochastic models, providing new insights into the relationship between sequence and structure evolution. For example, using the trained model we were able to identify an apparent sequence–structure evolutionary motif present in a large number of homologous protein pairs. The generative nature of our model enables us to evaluate its validity and its ability to simulate aspects of protein evolution conditioned on an amino acid sequence, a related amino acid sequence, a related structure or any combination thereof. PMID:28453724

Three Dimensional Modeling via Photographs for Documentation of a Village Bath

NASA Astrophysics Data System (ADS)

Balta, H. B.; Hamamcioglu-Turan, M.; Ocali, O.

2013-07-01

The aim of this study is supporting the conceptual discussions of architectural restoration with three dimensional modeling of monuments based on photogrammetric survey. In this study, a 16th century village bath in Ulamış, Seferihisar, and Izmir is modeled for documentation. Ulamış is one of the historical villages within which Turkish population first settled in the region of Seferihisar - Urla. The methodology was tested on an antique monument; a bath with a cubical form. Within the limits of this study, only the exterior of the bath was modeled. The presentation scale for the bath was determined as 1 / 50, considering the necessities of designing structural interventions and architectural ones within the scope of a restoration project. The three dimensional model produced is a realistic document presenting the present situation of the ruin. Traditional plan, elevation and perspective drawings may be produced from the model, in addition to the realistic textured renderings and wireframe representations. The model developed in this study provides opportunity for presenting photorealistic details of historical morphologies in scale. Compared to conventional drawings, the renders based on the 3d models provide an opportunity for conceiving architectural details such as color, material and texture. From these documents, relatively more detailed restitution hypothesis can be developed and intervention decisions can be taken. Finally, the principles derived from the case study can be used for 3d documentation of historical structures with irregular surfaces.

Analysis of Yb3+/Er3+-codoped microring resonator cross-grid matrices

NASA Astrophysics Data System (ADS)

Vallés, Juan A.; Gǎlǎtuş, Ramona

2014-09-01

An analytic model of the scattering response of a highly Yb3+/Er3+-codoped phosphate glass microring resonator matrix is considered to obtain the transfer functions of an M x N cross-grid microring resonator structure. Then a detailed model is used to calculate the pump and signal propagation, including a microscopic statistical formalism to describe the high-concentration induced energy-transfer mechanisms and passive and active features are combined to realistically simulate the performance as a wavelength-selective amplifier or laser. This analysis allows the optimization of these structures for telecom or sensing applications.

Advanced Mechanistic 3D Spatial Modeling and Analysis Methods to Accurately Represent Nuclear Facility External Event Scenarios

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

Sezen, Halil; Aldemir, Tunc; Denning, R.

Probabilistic risk assessment of nuclear power plants initially focused on events initiated by internal faults at the plant, rather than external hazards including earthquakes and flooding. Although the importance of external hazards risk analysis is now well recognized, the methods for analyzing low probability external hazards rely heavily on subjective judgment of specialists, often resulting in substantial conservatism. This research developed a framework to integrate the risk of seismic and flooding events using realistic structural models and simulation of response of nuclear structures. The results of four application case studies are presented.

Coarse-Grained Structural Modeling of Molecular Motors Using Multibody Dynamics

PubMed Central

Parker, David; Bryant, Zev; Delp, Scott L.

2010-01-01

Experimental and computational approaches are needed to uncover the mechanisms by which molecular motors convert chemical energy into mechanical work. In this article, we describe methods and software to generate structurally realistic models of molecular motor conformations compatible with experimental data from different sources. Coarse-grained models of molecular structures are constructed by combining groups of atoms into a system of rigid bodies connected by joints. Contacts between rigid bodies enforce excluded volume constraints, and spring potentials model system elasticity. This simplified representation allows the conformations of complex molecular motors to be simulated interactively, providing a tool for hypothesis building and quantitative comparisons between models and experiments. In an example calculation, we have used the software to construct atomically detailed models of the myosin V molecular motor bound to its actin track. The software is available at www.simtk.org. PMID:20428469

Truncated disc surface brightness profiles produced by flares

NASA Astrophysics Data System (ADS)

Borlaff, Alejandro; Eliche-Moral, M. Carmen; Beckman, John; Font, Joan

2017-03-01

Previous studies have discarded that flares in galactic discs may explain the truncation that are frequently observed in highly-inclined galaxies (Kregel et al. 2002). However, no study has systematically analysed this hypothesis using realistic models for the disc, the flare and the bulge. We derive edge-on and face-on surface brightness profiles for a series of realistic galaxy models with flared discs that sample a wide range of structural and photometric parameters across the Hubble Sequence, accordingly to observations. The surface brightness profile for each galaxy model has been simulated for edge-on and face-on views to find out whether the flared disc produces a significant truncation in the disc in the edge-on view compared to the face-on view or not. In order to simulate realistic images of disc galaxies, we have considered the observational distribution of the photometric parameters as a function of the morphological type for three mass bins (10 < log10(M/M ⊙) < 10.7, 10.7 < log10(M/M ⊙) < 11 and log10(M/M ⊙) > 11), and four morphological type bins (S0-Sa, Sb-Sbc, Sc-Scd and Sd-Sdm). For each mass bin, we have restricted the photometric and structural parameters of each modelled galaxy to their characteristic observational ranges (μ0, disc, μeff, bulge, B/T, M abs, r eff, n bulge, h R, disc) and the flare in the disc (h z, disc/h R, disc, ∂h z, disc/∂R, see de Grijs & Peletier 1997, Graham 2001, López-Corredoira et al. 2002, Yoachim & Dalcanton 2006, Bizyaev et al. 2014, Mosenkov et al. 2015). Contrary to previous claims, the simulations show that realistic flared disks can be responsible for the truncations observed in many edge-on systems, preserving the profile of the non-flared analogous model in face-on view. These breaks reproduce the properties of the weak-to-intermediate breaks observed in many real Type-II galaxies in the diagram relating the radial location of the break (R brkII) in units of the inner disk scale-length with the break strength S (Laine et al. 2014). Radial variation of the scale-height of the disc (flaring) can explain the existence of many breaks in edge-on galaxies, especially of those with low break strengths 10\\frac{ho}{hi} \\sim \\ [-0.3,-0.1]$ .

The role of blood vessels in high-resolution volume conductor head modeling of EEG.

PubMed

Fiederer, L D J; Vorwerk, J; Lucka, F; Dannhauer, M; Yang, S; Dümpelmann, M; Schulze-Bonhage, A; Aertsen, A; Speck, O; Wolters, C H; Ball, T

2016-03-01

Reconstruction of the electrical sources of human EEG activity at high spatio-temporal accuracy is an important aim in neuroscience and neurological diagnostics. Over the last decades, numerous studies have demonstrated that realistic modeling of head anatomy improves the accuracy of source reconstruction of EEG signals. For example, including a cerebro-spinal fluid compartment and the anisotropy of white matter electrical conductivity were both shown to significantly reduce modeling errors. Here, we for the first time quantify the role of detailed reconstructions of the cerebral blood vessels in volume conductor head modeling for EEG. To study the role of the highly arborized cerebral blood vessels, we created a submillimeter head model based on ultra-high-field-strength (7T) structural MRI datasets. Blood vessels (arteries and emissary/intraosseous veins) were segmented using Frangi multi-scale vesselness filtering. The final head model consisted of a geometry-adapted cubic mesh with over 17×10(6) nodes. We solved the forward model using a finite-element-method (FEM) transfer matrix approach, which allowed reducing computation times substantially and quantified the importance of the blood vessel compartment by computing forward and inverse errors resulting from ignoring the blood vessels. Our results show that ignoring emissary veins piercing the skull leads to focal localization errors of approx. 5 to 15mm. Large errors (>2cm) were observed due to the carotid arteries and the dense arterial vasculature in areas such as in the insula or in the medial temporal lobe. Thus, in such predisposed areas, errors caused by neglecting blood vessels can reach similar magnitudes as those previously reported for neglecting white matter anisotropy, the CSF or the dura - structures which are generally considered important components of realistic EEG head models. Our findings thus imply that including a realistic blood vessel compartment in EEG head models will be helpful to improve the accuracy of EEG source analyses particularly when high accuracies in brain areas with dense vasculature are required. Copyright © 2016 The Authors. Published by Elsevier Inc. All rights reserved.

Towards realistic string vacua from branes at singularities

NASA Astrophysics Data System (ADS)

Conlon, Joseph P.; Maharana, Anshuman; Quevedo, Fernando

2009-05-01

We report on progress towards constructing string models incorporating both realistic D-brane matter content and moduli stabilisation with dynamical low-scale supersymmetry breaking. The general framework is that of local D-brane models embedded into the LARGE volume approach to moduli stabilisation. We review quiver theories on del Pezzo n (dPn) singularities including both D3 and D7 branes. We provide supersymmetric examples with three quark/lepton families and the gauge symmetries of the Standard, Left-Right Symmetric, Pati-Salam and Trinification models, without unwanted chiral exotics. We describe how the singularity structure leads to family symmetries governing the Yukawa couplings which may give mass hierarchies among the different generations. We outline how these models can be embedded into compact Calabi-Yau compactifications with LARGE volume moduli stabilisation, and state the minimal conditions for this to be possible. We study the general structure of soft supersymmetry breaking. At the singularity all leading order contributions to the soft terms (both gravity- and anomaly-mediation) vanish. We enumerate subleading contributions and estimate their magnitude. We also describe model-independent physical implications of this scenario. These include the masses of anomalous and non-anomalous U(1)'s and the generic existence of a new hyperweak force under which leptons and/or quarks could be charged. We propose that such a gauge boson could be responsible for the ghost muon anomaly recently found at the Tevatron's CDF detector.

Multivariate Non-Symmetric Stochastic Models for Spatial Dependence Models

NASA Astrophysics Data System (ADS)

Haslauer, C. P.; Bárdossy, A.

2017-12-01

A copula based multivariate framework allows more flexibility to describe different kind of dependences than what is possible using models relying on the confining assumption of symmetric Gaussian models: different quantiles can be modelled with a different degree of dependence; it will be demonstrated how this can be expected given process understanding. maximum likelihood based multivariate quantitative parameter estimation yields stable and reliable results; not only improved results in cross-validation based measures of uncertainty are obtained but also a more realistic spatial structure of uncertainty compared to second order models of dependence; as much information as is available is included in the parameter estimation: incorporation of censored measurements (e.g., below detection limit, or ones that are above the sensitive range of the measurement device) yield to more realistic spatial models; the proportion of true zeros can be jointly estimated with and distinguished from censored measurements which allow estimates about the age of a contaminant in the system; secondary information (categorical and on the rational scale) has been used to improve the estimation of the primary variable; These copula based multivariate statistical techniques are demonstrated based on hydraulic conductivity observations at the Borden (Canada) site, the MADE site (USA), and a large regional groundwater quality data-set in south-west Germany. Fields of spatially distributed K were simulated with identical marginal simulation, identical second order spatial moments, yet substantially differing solute transport characteristics when numerical tracer tests were performed. A statistical methodology is shown that allows the delineation of a boundary layer separating homogenous parts of a spatial data-set. The effects of this boundary layer (macro structure) and the spatial dependence of K (micro structure) on solute transport behaviour is shown.

Microscopic model for intersubband gain from electrically pumped quantum-dot structures

DOE PAGES

Michael, Stephan; Chow, Weng Wah; Schneider, Han Christian

2014-10-03

We study theoretically the performance of electrically pumped self-organized quantum dots as a gain material in the mid-infrared range at room temperature. We analyze an AlGaAs/InGaAs based structure composed of dots-in-a-well sandwiched between two quantum wells. We numerically analyze a comprehensive model by combining a many-particle approach for electronic dynamics with a realistic modeling of the electronic states in the whole structure. We investigate the gain both for quasi-equilibrium conditions and current injection. We find, comparing different structures, that steady-state gain can only be realized by an efficient extraction process, which prevents an accumulation of electrons in continuum states, thatmore » make the available scattering pathways through the quantum-dot active region too fast to sustain inversion.« less

Modelling digital thunder

NASA Astrophysics Data System (ADS)

Blanco, Francesco; La Rocca, Paola; Petta, Catia; Riggi, Francesco

2009-01-01

An educational model simulation of the sound produced by lightning in the sky has been employed to demonstrate realistic signatures of thunder and its connection to the particular structure of the lightning channel. Algorithms used in the past have been revisited and implemented, making use of current computer techniques. The basic properties of the mathematical model, together with typical results and suggestions for additional developments are discussed. The paper is intended as a teaching aid for students and teachers in the context of introductory physics courses at university level.

An Integrated Approach to Damage Accommodation in Flight Control

NASA Technical Reports Server (NTRS)

Boskovic, Jovan D.; Knoebel, Nathan; Mehra, Raman K.; Gregory, Irene

2008-01-01

In this paper we present an integrated approach to in-flight damage accommodation in flight control. The approach is based on Multiple Models, Switching and Tuning (MMST), and consists of three steps: In the first step the main objective is to acquire a realistic aircraft damage model. Modeling of in-flight damage is a highly complex problem since there is a large number of issues that need to be addressed. One of the most important one is that there is strong coupling between structural dynamics, aerodynamics, and flight control. These effects cannot be studied separately due to this coupling. Once a realistic damage model is available, in the second step a large number of models corresponding to different damage cases are generated. One possibility is to generate many linear models and interpolate between them to cover a large portion of the flight envelope. Once these models have been generated, we will implement a recently developed-Model Set Reduction (MSR) technique. The technique is based on parameterizing damage in terms of uncertain parameters, and uses concepts from robust control theory to arrive at a small number of "centered" models such that the controllers corresponding to these models assure desired stability and robustness properties over a subset in the parametric space. By devising a suitable model placement strategy, the entire parametric set is covered with a relatively small number of models and controllers. The third step consists of designing a Multiple Models, Switching and Tuning (MMST) strategy for estimating the current operating regime (damage case) of the aircraft, and switching to the corresponding controller to achieve effective damage accommodation and the desired performance. In the paper present a comprehensive approach to damage accommodation using Model Set Design,MMST, and Variable Structure compensation for coupling nonlinearities. The approach was evaluated on a model of F/A-18 aircraft dynamics under control effector damage, augmented by nonlinear cross-coupling terms and a structural dynamics model. The proposed approach achieved excellent performance under severe damage effects.

Chip level modeling of LSI devices

NASA Technical Reports Server (NTRS)

Armstrong, J. R.

1984-01-01

The advent of Very Large Scale Integration (VLSI) technology has rendered the gate level model impractical for many simulation activities critical to the design automation process. As an alternative, an approach to the modeling of VLSI devices at the chip level is described, including the specification of modeling language constructs important to the modeling process. A model structure is presented in which models of the LSI devices are constructed as single entities. The modeling structure is two layered. The functional layer in this structure is used to model the input/output response of the LSI chip. A second layer, the fault mapping layer, is added, if fault simulations are required, in order to map the effects of hardware faults onto the functional layer. Modeling examples for each layer are presented. Fault modeling at the chip level is described. Approaches to realistic functional fault selection and defining fault coverage for functional faults are given. Application of the modeling techniques to single chip and bit slice microprocessors is discussed.

Simulation of South-Asian Summer Monsoon in a GCM

NASA Astrophysics Data System (ADS)

Ajayamohan, R. S.

2007-10-01

Major characteristics of Indian summer monsoon climate are analyzed using simulations from the upgraded version of Florida State University Global Spectral Model (FSUGSM). The Indian monsoon has been studied in terms of mean precipitation and low-level and upper-level circulation patterns and compared with observations. In addition, the model's fidelity in simulating observed monsoon intraseasonal variability, interannual variability and teleconnection patterns is examined. The model is successful in simulating the major rainbelts over the Indian monsoon region. However, the model exhibits bias in simulating the precipitation bands over the South China Sea and the West Pacific region. Seasonal mean circulation patterns of low-level and upper-level winds are consistent with the model's precipitation pattern. Basic features like onset and peak phase of monsoon are realistically simulated. However, model simulation indicates an early withdrawal of monsoon. Northward propagation of rainbelts over the Indian continent is simulated fairly well, but the propagation is weak over the ocean. The model simulates the meridional dipole structure associated with the monsoon intraseasonal variability realistically. The model is unable to capture the observed interannual variability of monsoon and its teleconnection patterns. Estimate of potential predictability of the model reveals the dominating influence of internal variability over the Indian monsoon region.

Reconciling Dwarf Galaxies with ΛCDM Cosmology: Simulating a Realistic Population of Satellites around a Milky Way-mass Galaxy

NASA Astrophysics Data System (ADS)

Wetzel, Andrew R.; Hopkins, Philip F.; Kim, Ji-hoon; Faucher-Giguère, Claude-André; Kereš, Dušan; Quataert, Eliot

2016-08-01

Low-mass “dwarf” galaxies represent the most significant challenges to the cold dark matter (CDM) model of cosmological structure formation. Because these faint galaxies are (best) observed within the Local Group (LG) of the Milky Way (MW) and Andromeda (M31), understanding their formation in such an environment is critical. We present first results from the Latte Project: the Milky Way on Feedback in Realistic Environments (FIRE). This simulation models the formation of an MW-mass galaxy to z=0 within ΛCDM cosmology, including dark matter, gas, and stars at unprecedented resolution: baryon particle mass of 7070 {M}⊙ with gas kernel/softening that adapts down to 1 {pc} (with a median of 25{--}60 {pc} at z=0). Latte was simulated using the GIZMO code with a mesh-free method for accurate hydrodynamics and the FIRE-2 model for star formation and explicit feedback within a multi-phase interstellar medium. For the first time, Latte self-consistently resolves the spatial scales corresponding to half-light radii of dwarf galaxies that form around an MW-mass host down to {M}{star}≳ {10}5 {M}⊙ . Latte’s population of dwarf galaxies agrees with the LG across a broad range of properties: (1) distributions of stellar masses and stellar velocity dispersions (dynamical masses), including their joint relation; (2) the mass-metallicity relation; and (3) diverse range of star formation histories, including their mass dependence. Thus, Latte produces a realistic population of dwarf galaxies at {M}{star}≳ {10}5 {M}⊙ that does not suffer from the “missing satellites” or “too big to fail” problems of small-scale structure formation. We conclude that baryonic physics can reconcile observed dwarf galaxies with standard ΛCDM cosmology.

Unconstrained Structure Formation in Coarse-Grained Protein Simulations

NASA Astrophysics Data System (ADS)

Bereau, Tristan

The ability of proteins to fold into well-defined structures forms the basis of a wide variety of biochemical functions in and out of the cell membrane. Many of these processes, however, operate at time- and length-scales that are currently unattainable by all-atom computer simulations. To cope with this difficulty, increasingly more accurate and sophisticated coarse-grained models are currently being developed. In the present thesis, we introduce a solvent-free coarse-grained model for proteins. Proteins are modeled by four beads per amino acid, providing enough backbone resolution to allow for accurate sampling of local conformations. It relies on simple interactions that emphasize structure, such as hydrogen bonds and hydrophobicity. Realistic alpha/beta content is achieved by including an effective nearest-neighbor dipolar interaction. Parameters are tuned to reproduce both local conformations and tertiary structures. By studying both helical and extended conformations we make sure the force field is not biased towards any particular secondary structure. Without any further adjustments or bias a realistic oligopeptide aggregation scenario is observed. The model is subsequently applied to various biophysical problems: (i) kinetics of folding of two model peptides, (ii) large-scale amyloid-beta oligomerization, and (iii) protein folding cooperativity. The last topic---defined by the nature of the finite-size thermodynamic transition exhibited upon folding---was investigated from a microcanonical perspective: the accurate evaluation of the density of states can unambiguously characterize the nature of the transition, unlike its corresponding canonical analysis. Extending the results of lattice simulations and theoretical models, we find that it is the interplay between secondary structure and the loss of non-native tertiary contacts which determines the nature of the transition. Finally, we combine the peptide model with a high-resolution, solvent-free, lipid model. The lipid force field was systematically tuned to reproduce the structural and mechanical properties of phosphatidylcholine bilayers. The two models were cross-parametrized against atomistic potential of mean force curves for the insertion of single amino acid side chains into a bilayer. Coarse-grained transmembrane protein simulations were then compared with experiments and atomistic simulations to validate the force field. The transferability of the two models across amino acid sequences and lipid species permits the investigation of a wide variety of scenarios, while the absence of explicit solvent allows for studies of large-scale phenomena.

Simulation Studies of Forest Structure using 3D Lidar and Radar Models

NASA Technical Reports Server (NTRS)

Sun, Guoqing; Ranson, K. Jon; Koetz, Benjamin; Liu, Dawei

2007-01-01

The use of lidars and radars to measure forest structure attributes such as height and biomass are being considered for future Earth Observation missions. Large footprint lidar makes a direct measurement of the heights of scatterers in the illuminated footprint and can yield information about the vertical profile of the canopy. Synthetic Aperture Radar (SAR) is known to sense the canopy volume, especially at longer wavelengths and is useful for estimating biomass. Interferometric SAR (InSAR) has been shown to yield forest canopy height information. For example, the height of scattering phase retrieved from InSAR data is considered to be correlated with the three height and the spatial structure of the forest stand. There is much interest in exploiting these technologies separately and together to get important information for carbon cycle and ecosystem science. More detailed information of the electromagnetic radiation interactions within forest canopies is needed. And backscattering models can be of much utility here. As part of a NASA funded project to explore data fusion, a three-dimensional (3D) coherent radar backscattering model and a 3D lidar backscatter models were used to investigate the use of large footprint lidar, SAR and InSAR for characterizing realistic forest scenes. For this paper, we use stem maps and other forest measurements to develop a realistic spatial structure of a spruce-hemlock forest canopy found in Maine, USA. The radar and lidar models used measurements of the 3D forest scene as input and simulated the coherent radar backscattering signature and 1064nm energy backscatter, respectively. The relationships of backscatter derived forest structure were compared with field measurements. In addition, we also had detailed airborne lidar (Laser Imaging Vegetation Sensor, LVIS) data available over the stem map sites that was used to study the accuracies of tree height derived from modeled SAR backscatter and the scattering phase center retrieved from the simulated InSAR data will be compared with the height indices, or other structure parameters derived from the lidar data. These results will address the possible synergies between lidar and radar in data in terms of forest structural information.

Elucidation of the Dynamics for Hot-Spot Initiation at Nonuniform Interfaces of Highly Shocked Materials

DTIC Science & Technology

2011-12-07

with nonuniform interfaces plays an essential role in the interfacial instabilities in iner- tial confinement fusion (ICF), in shock-induced...involved in interfacial instabilities at the atomic scale, providing insights on such phenomenon. Thus ReaxFF provides the possibility of realistic...calculations was also performed on the IPDI and DOA to determine the charges and structures for the binder model. These QM results and model preparation

Elucidation of the Dynamics for Hot-Spot Initiation at Nonuniform Interfaces of Highly Shocked Materials

DTIC Science & Technology

2011-12-07

with nonuniform interfaces plays an essential role in the interfacial instabilities in iner- tial confinement fusion (ICF), in shock-induced...involved in interfacial instabilities at the atomic scale, providing insights on such phenomenon. Thus ReaxFF provides the possibility of realistic...on the IPDI and DOA to determine the charges and structures for the binder model. These QM results and model preparation procedure are provided as part

A new method for constructing networks from binary data

NASA Astrophysics Data System (ADS)

van Borkulo, Claudia D.; Borsboom, Denny; Epskamp, Sacha; Blanken, Tessa F.; Boschloo, Lynn; Schoevers, Robert A.; Waldorp, Lourens J.

2014-08-01

Network analysis is entering fields where network structures are unknown, such as psychology and the educational sciences. A crucial step in the application of network models lies in the assessment of network structure. Current methods either have serious drawbacks or are only suitable for Gaussian data. In the present paper, we present a method for assessing network structures from binary data. Although models for binary data are infamous for their computational intractability, we present a computationally efficient model for estimating network structures. The approach, which is based on Ising models as used in physics, combines logistic regression with model selection based on a Goodness-of-Fit measure to identify relevant relationships between variables that define connections in a network. A validation study shows that this method succeeds in revealing the most relevant features of a network for realistic sample sizes. We apply our proposed method to estimate the network of depression and anxiety symptoms from symptom scores of 1108 subjects. Possible extensions of the model are discussed.

Numerical simulation of magmatic hydrothermal systems

USGS Publications Warehouse

Ingebritsen, S.E.; Geiger, S.; Hurwitz, S.; Driesner, T.

2010-01-01

The dynamic behavior of magmatic hydrothermal systems entails coupled and nonlinear multiphase flow, heat and solute transport, and deformation in highly heterogeneous media. Thus, quantitative analysis of these systems depends mainly on numerical solution of coupled partial differential equations and complementary equations of state (EOS). The past 2 decades have seen steady growth of computational power and the development of numerical models that have eliminated or minimized the need for various simplifying assumptions. Considerable heuristic insight has been gained from process-oriented numerical modeling. Recent modeling efforts employing relatively complete EOS and accurate transport calculations have revealed dynamic behavior that was damped by linearized, less accurate models, including fluid property control of hydrothermal plume temperatures and three-dimensional geometries. Other recent modeling results have further elucidated the controlling role of permeability structure and revealed the potential for significant hydrothermally driven deformation. Key areas for future reSearch include incorporation of accurate EOS for the complete H2O-NaCl-CO2 system, more realistic treatment of material heterogeneity in space and time, realistic description of large-scale relative permeability behavior, and intercode benchmarking comparisons. Copyright 2010 by the American Geophysical Union.

Structural Changes in Lipid Vesicles Generated by the Shock Blast Waves: Coarse-Grained Molecular Dynamics Simulation

DTIC Science & Technology

2013-11-01

duration, or shock-pulse shape. Used in this computational study is a coarse-grained model of the lipid vesicle as a simplified model of a cell...Figures iv List of Tables iv 1. Introduction 1 2. Model and Methods 3 3. Results and Discussion 6 3.1 Simulation of the Blast Waves with Low Peak...realistic detail but to focus on a simple model of the major constituent of a cell membrane, the phospholipid bilayer. In this work, we studied the

An implicit divalent counterion force field for RNA molecular dynamics

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

Henke, Paul S.; Mak, Chi H., E-mail: cmak@usc.edu; Center of Applied Mathematical Sciences, University of Southern California, Los Angeles, California 90089

How to properly account for polyvalent counterions in a molecular dynamics simulation of polyelectrolytes such as nucleic acids remains an open question. Not only do counterions such as Mg{sup 2+} screen electrostatic interactions, they also produce attractive intrachain interactions that stabilize secondary and tertiary structures. Here, we show how a simple force field derived from a recently reported implicit counterion model can be integrated into a molecular dynamics simulation for RNAs to realistically reproduce key structural details of both single-stranded and base-paired RNA constructs. This divalent counterion model is computationally efficient. It works with existing atomistic force fields, or coarse-grainedmore » models may be tuned to work with it. We provide optimized parameters for a coarse-grained RNA model that takes advantage of this new counterion force field. Using the new model, we illustrate how the structural flexibility of RNA two-way junctions is modified under different salt conditions.« less

Waveform inversion of acoustic waves for explosion yield estimation

DOE PAGES

Kim, K.; Rodgers, A. J.

2016-07-08

We present a new waveform inversion technique to estimate the energy of near-surface explosions using atmospheric acoustic waves. Conventional methods often employ air blast models based on a homogeneous atmosphere, where the acoustic wave propagation effects (e.g., refraction and diffraction) are not taken into account, and therefore, their accuracy decreases with increasing source-receiver distance. In this study, three-dimensional acoustic simulations are performed with a finite difference method in realistic atmospheres and topography, and the modeled acoustic Green's functions are incorporated into the waveform inversion for the acoustic source time functions. The strength of the acoustic source is related to explosionmore » yield based on a standard air blast model. The technique was applied to local explosions (<10 km) and provided reasonable yield estimates (<~30% error) in the presence of realistic topography and atmospheric structure. In conclusion, the presented method can be extended to explosions recorded at far distance provided proper meteorological specifications.« less

Water versus DNA: New insights into proton track-structure modeling in radiobiology and radiotherapy

DOE PAGES

Champion, Christophe; Quinto, Michele A.; Monti, Juan M.; ...

2015-09-25

Water is a common surrogate of DNA for modelling the charged particle-induced ionizing processes in living tissue exposed to radiations. The present study aims at scrutinizing the validity of this approximation and then revealing new insights into proton-induced energy transfers by a comparative analysis between water and realistic biological medium. In this context, a self-consistent quantum mechanical modelling of the ionization and electron capture processes is reported within the continuum distorted wave-eikonal initial state framework for both isolated water molecules and DNA components impacted by proton beams. Their respective probability of occurrence-expressed in terms of total cross sections-as well asmore » their energetic signature (potential and kinetic) are assessed in order to clearly emphasize the differences existing between realistic building blocks of living matter and the controverted water-medium surrogate. Thus the consequences in radiobiology and radiotherapy will be discussed in particular in view of treatment planning refinement aiming at better radiotherapy strategies.« less

Water versus DNA: new insights into proton track-structure modelling in radiobiology and radiotherapy.

PubMed

Champion, C; Quinto, M A; Monti, J M; Galassi, M E; Weck, P F; Fojón, O A; Hanssen, J; Rivarola, R D

2015-10-21

Water is a common surrogate of DNA for modelling the charged particle-induced ionizing processes in living tissue exposed to radiations. The present study aims at scrutinizing the validity of this approximation and then revealing new insights into proton-induced energy transfers by a comparative analysis between water and realistic biological medium. In this context, a self-consistent quantum mechanical modelling of the ionization and electron capture processes is reported within the continuum distorted wave-eikonal initial state framework for both isolated water molecules and DNA components impacted by proton beams. Their respective probability of occurrence-expressed in terms of total cross sections-as well as their energetic signature (potential and kinetic) are assessed in order to clearly emphasize the differences existing between realistic building blocks of living matter and the controverted water-medium surrogate. Consequences in radiobiology and radiotherapy will be discussed in particular in view of treatment planning refinement aiming at better radiotherapy strategies.

Waveform inversion of acoustic waves for explosion yield estimation

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

Kim, K.; Rodgers, A. J.

We present a new waveform inversion technique to estimate the energy of near-surface explosions using atmospheric acoustic waves. Conventional methods often employ air blast models based on a homogeneous atmosphere, where the acoustic wave propagation effects (e.g., refraction and diffraction) are not taken into account, and therefore, their accuracy decreases with increasing source-receiver distance. In this study, three-dimensional acoustic simulations are performed with a finite difference method in realistic atmospheres and topography, and the modeled acoustic Green's functions are incorporated into the waveform inversion for the acoustic source time functions. The strength of the acoustic source is related to explosionmore » yield based on a standard air blast model. The technique was applied to local explosions (<10 km) and provided reasonable yield estimates (<~30% error) in the presence of realistic topography and atmospheric structure. In conclusion, the presented method can be extended to explosions recorded at far distance provided proper meteorological specifications.« less

Cosmic-ray propagation with DRAGON2: I. numerical solver and astrophysical ingredients

NASA Astrophysics Data System (ADS)

Evoli, Carmelo; Gaggero, Daniele; Vittino, Andrea; Di Bernardo, Giuseppe; Di Mauro, Mattia; Ligorini, Arianna; Ullio, Piero; Grasso, Dario

2017-02-01

We present version 2 of the DRAGON code designed for computing realistic predictions of the CR densities in the Galaxy. The code numerically solves the interstellar CR transport equation (including inhomogeneous and anisotropic diffusion, either in space and momentum, advective transport and energy losses), under realistic conditions. The new version includes an updated numerical solver and several models for the astrophysical ingredients involved in the transport equation. Improvements in the accuracy of the numerical solution are proved against analytical solutions and in reference diffusion scenarios. The novel features implemented in the code allow to simulate the diverse scenarios proposed to reproduce the most recent measurements of local and diffuse CR fluxes, going beyond the limitations of the homogeneous galactic transport paradigm. To this end, several applications using DRAGON2 are presented as well. This new version facilitates the users to include their own physical models by means of a modular C++ structure.

CG2Real: Improving the Realism of Computer Generated Images Using a Large Collection of Photographs.

PubMed

Johnson, Micah K; Dale, Kevin; Avidan, Shai; Pfister, Hanspeter; Freeman, William T; Matusik, Wojciech

2011-09-01

Computer-generated (CG) images have achieved high levels of realism. This realism, however, comes at the cost of long and expensive manual modeling, and often humans can still distinguish between CG and real images. We introduce a new data-driven approach for rendering realistic imagery that uses a large collection of photographs gathered from online repositories. Given a CG image, we retrieve a small number of real images with similar global structure. We identify corresponding regions between the CG and real images using a mean-shift cosegmentation algorithm. The user can then automatically transfer color, tone, and texture from matching regions to the CG image. Our system only uses image processing operations and does not require a 3D model of the scene, making it fast and easy to integrate into digital content creation workflows. Results of a user study show that our hybrid images appear more realistic than the originals.

Sensitivity of equatorial Pacific and Indian Ocean watermasses to the position of the Indonesian Throughflow

NASA Astrophysics Data System (ADS)

Rodgers, Keith B.; Latif, Mojib; Legutke, Stephanie

2000-09-01

The sensitivity of the thermal structure of the equatorial Pacific and Indian Ocean pycnoclines to a model's representation of the Indonesian Straits connecting the two basins is investigated. Two integrations are performed using the global HOPE ocean model. The initial conditions and surface forcing for both cases are identical; the only difference between the runs is that one has an opening for the Indonesian Straits which spans the equator on the Pacific side, and the other has an opening which lies fully north of the equator. The resulting sensitivity throughout much of the upper ocean is greater than 0.5°C for both the equatorial Indian and Pacific. A realistic simulation of net Indonesian Throughflow (ITF) transport (measured in Sverdrups) is not sufficient for an adequate simulation of equatorial watermasses. The ITF must also contain a realistic admixture of northern and southern Pacific source water.

Model of Ni-63 battery with realistic PIN structure

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

Munson, Charles E.; Voss, Paul L.; Ougazzaden, Abdallah, E-mail: aougazza@georgiatech-metz.fr

2015-09-14

GaN, with its wide bandgap of 3.4 eV, has emerged as an efficient material for designing high-efficiency betavoltaic batteries. An important part of designing efficient betavoltaic batteries involves a good understanding of the full process, from the behavior of the nuclear material and the creation of electron-hole pairs all the way through the collection of photo-generated carriers. This paper presents a detailed model based on Monte Carlo and Silvaco for a GaN-based betavoltaic battery device, modeled after Ni-63 as an energy source. The accuracy of the model is verified by comparing it with experimental values obtained for a GaN-based p-i-nmore » structure under scanning electron microscope illumination.« less

Model of Ni-63 battery with realistic PIN structure

NASA Astrophysics Data System (ADS)

Munson, Charles E.; Arif, Muhammad; Streque, Jeremy; Belahsene, Sofiane; Martinez, Anthony; Ramdane, Abderrahim; El Gmili, Youssef; Salvestrini, Jean-Paul; Voss, Paul L.; Ougazzaden, Abdallah

2015-09-01

GaN, with its wide bandgap of 3.4 eV, has emerged as an efficient material for designing high-efficiency betavoltaic batteries. An important part of designing efficient betavoltaic batteries involves a good understanding of the full process, from the behavior of the nuclear material and the creation of electron-hole pairs all the way through the collection of photo-generated carriers. This paper presents a detailed model based on Monte Carlo and Silvaco for a GaN-based betavoltaic battery device, modeled after Ni-63 as an energy source. The accuracy of the model is verified by comparing it with experimental values obtained for a GaN-based p-i-n structure under scanning electron microscope illumination.

The effect of collagen fibril orientation on the biphasic mechanics of articular cartilage.

PubMed

Meng, Qingen; An, Shuqiang; Damion, Robin A; Jin, Zhongmin; Wilcox, Ruth; Fisher, John; Jones, Alison

2017-01-01

The highly inhomogeneous distribution of collagen fibrils may have important effects on the biphasic mechanics of articular cartilage. However, the effect of the inhomogeneity of collagen fibrils has mainly been investigated using simplified three-layered models, which may have underestimated the effect of collagen fibrils by neglecting their realistic orientation. The aim of this study was to investigate the effect of the realistic orientation of collagen fibrils on the biphasic mechanics of articular cartilage. Five biphasic material models, each of which included a different level of complexity of fibril reinforcement, were solved using two different finite element software packages (Abaqus and FEBio). Model 1 considered the realistic orientation of fibrils, which was derived from diffusion tensor magnetic resonance images. The simplified three-layered orientation was used for Model 2. Models 3-5 were three control models. The realistic collagen orientations obtained in this study were consistent with the literature. Results from the two finite element implementations were in agreement for each of the conditions modelled. The comparison between the control models confirmed some functions of collagen fibrils. The comparison between Models 1 and 2 showed that the widely-used three-layered inhomogeneous model can produce similar fluid load support to the model including the realistic fibril orientation; however, an accurate prediction of the other mechanical parameters requires the inclusion of the realistic orientation of collagen fibrils. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

Combining 3D structure of real video and synthetic objects

NASA Astrophysics Data System (ADS)

Kim, Man-Bae; Song, Mun-Sup; Kim, Do-Kyoon

1998-04-01

This paper presents a new approach of combining real video and synthetic objects. The purpose of this work is to use the proposed technology in the fields of advanced animation, virtual reality, games, and so forth. Computer graphics has been used in the fields previously mentioned. Recently, some applications have added real video to graphic scenes for the purpose of augmenting the realism that the computer graphics lacks in. This approach called augmented or mixed reality can produce more realistic environment that the entire use of computer graphics. Our approach differs from the virtual reality and augmented reality in the manner that computer- generated graphic objects are combined to 3D structure extracted from monocular image sequences. The extraction of the 3D structure requires the estimation of 3D depth followed by the construction of a height map. Graphic objects are then combined to the height map. The realization of our proposed approach is carried out in the following steps: (1) We derive 3D structure from test image sequences. The extraction of the 3D structure requires the estimation of depth and the construction of a height map. Due to the contents of the test sequence, the height map represents the 3D structure. (2) The height map is modeled by Delaunay triangulation or Bezier surface and each planar surface is texture-mapped. (3) Finally, graphic objects are combined to the height map. Because 3D structure of the height map is already known, Step (3) is easily manipulated. Following this procedure, we produced an animation video demonstrating the combination of the 3D structure and graphic models. Users can navigate the realistic 3D world whose associated image is rendered on the display monitor.

CHARMM-GUI Membrane Builder toward realistic biological membrane simulations.

PubMed

Wu, Emilia L; Cheng, Xi; Jo, Sunhwan; Rui, Huan; Song, Kevin C; Dávila-Contreras, Eder M; Qi, Yifei; Lee, Jumin; Monje-Galvan, Viviana; Venable, Richard M; Klauda, Jeffery B; Im, Wonpil

2014-10-15

CHARMM-GUI Membrane Builder, http://www.charmm-gui.org/input/membrane, is a web-based user interface designed to interactively build all-atom protein/membrane or membrane-only systems for molecular dynamics simulations through an automated optimized process. In this work, we describe the new features and major improvements in Membrane Builder that allow users to robustly build realistic biological membrane systems, including (1) addition of new lipid types, such as phosphoinositides, cardiolipin (CL), sphingolipids, bacterial lipids, and ergosterol, yielding more than 180 lipid types, (2) enhanced building procedure for lipid packing around protein, (3) reliable algorithm to detect lipid tail penetration to ring structures and protein surface, (4) distance-based algorithm for faster initial ion displacement, (5) CHARMM inputs for P21 image transformation, and (6) NAMD equilibration and production inputs. The robustness of these new features is illustrated by building and simulating a membrane model of the polar and septal regions of E. coli membrane, which contains five lipid types: CL lipids with two types of acyl chains and phosphatidylethanolamine lipids with three types of acyl chains. It is our hope that CHARMM-GUI Membrane Builder becomes a useful tool for simulation studies to better understand the structure and dynamics of proteins and lipids in realistic biological membrane environments. Copyright © 2014 Wiley Periodicals, Inc.

The Sinking and Spreading of The Antarctic Deep Ice Shelf Water In The Ross Sea Studied By In Situ Observaions and Numerical Modeling

NASA Astrophysics Data System (ADS)

Rubino, A.; Budillon, G.; Pierini, S.; Spezie, G.

The sinking and spreading of the Deep Ice Shelf Water (DISW) in the Ross Sea are analyzed using in situ observations and the results of a nonlinear, reduced-gravity, frontal layered numerical "plume" model which is able to simulate the motion of a bottom-arrested current over realistic topography. The model is forced by prescribing the thickness of the DISW vein as well as its density structure at the southern model boundary. The ambient temperature and salinity are imposed using hydrographic data acquired by the Italian PNRA-CLIMA project. In the model water of the quiescent ambient ocean is allowed to entrain in the active deep layer due to a simple param- eterization of turbulent mixing. The importance of forcing the model with a realistic ambient density is demonstrated by carrying out a numerical simulation in which the bottom active layer is forced using an idealized ambient density. In a more realis- tic simulation the path and the density structure of the DISW vein flowing over the Challenger Basin are obtained and are found to be in good agreement with data. The evolution of the deep current beyond the continental shelf is also simulated. It provides useful information on the water flow and mixing in a region of the Ross Sea where the paucity of experimental data does not allow for a detailed description of the deep ocean dynamics.

Inter-Individual Variability in High-Throughput Risk ...

EPA Pesticide Factsheets

We incorporate realistic human variability into an open-source high-throughput (HT) toxicokinetics (TK) modeling framework for use in a next-generation risk prioritization approach. Risk prioritization involves rapid triage of thousands of environmental chemicals, most which have little or no existing TK data. Chemicals are prioritized based on model estimates of hazard and exposure, to decide which chemicals should be first in line for further study. Hazard may be estimated with in vitro HT screening assays, e.g., U.S. EPA’s ToxCast program. Bioactive ToxCast concentrations can be extrapolated to doses that produce equivalent concentrations in body tissues using a reverse TK approach in which generic TK models are parameterized with 1) chemical-specific parameters derived from in vitro measurements and predicted from chemical structure; and 2) with physiological parameters for a virtual population. Here we draw physiological parameters from realistic estimates of distributions of demographic and anthropometric quantities in the modern U.S. population, based on the most recent CDC NHANES data. A Monte Carlo approach, accounting for the correlation structure in physiological parameters, is used to estimate ToxCast equivalent doses for the most sensitive portion of the population. To quantify risk, ToxCast equivalent doses are compared to estimates of exposure rates based on Bayesian inferences drawn from NHANES urinary analyte biomonitoring data. The inclusion

Contaminant deposition building shielding factors for US residential structures.

PubMed

Dickson, Elijah; Hamby, David; Eckerman, Keith

2017-10-10

This paper presents validated building shielding factors designed for contemporary US housing-stock under an idealized, yet realistic, exposure scenario from contaminant deposition on the roof and surrounding surfaces. The building shielding factors are intended for use in emergency planning and level three probabilistic risk assessments for a variety of postulated radiological events in which a realistic assessment is necessary to better understand the potential risks for accident mitigation and emergency response planning. Factors are calculated from detailed computational housing-units models using the general-purpose Monte Carlo N-Particle computational code, MCNP5, and are benchmarked from a series of narrow- and broad-beam measurements analyzing the shielding effectiveness of ten common general-purpose construction materials and ten shielding models representing the primary weather barriers (walls and roofs) of likely US housing-stock. Each model was designed to scale based on common residential construction practices and include, to the extent practical, all structurally significant components important for shielding against ionizing radiation. Calculations were performed for floor-specific locations from contaminant deposition on the roof and surrounding ground as well as for computing a weighted-average representative building shielding factor for single- and multi-story detached homes, both with and without basement as well for single-wide manufactured housing-unit. © 2017 IOP Publishing Ltd.

Contaminant deposition building shielding factors for US residential structures.

PubMed

Dickson, E D; Hamby, D M; Eckerman, K F

2015-06-01

This paper presents validated building shielding factors designed for contemporary US housing-stock under an idealized, yet realistic, exposure scenario from contaminant deposition on the roof and surrounding surfaces. The building shielding factors are intended for use in emergency planning and level three probabilistic risk assessments for a variety of postulated radiological events in which a realistic assessment is necessary to better understand the potential risks for accident mitigation and emergency response planning. Factors are calculated from detailed computational housing-units models using the general-purpose Monte Carlo N-Particle computational code, MCNP5, and are benchmarked from a series of narrow- and broad-beam measurements analyzing the shielding effectiveness of ten common general-purpose construction materials and ten shielding models representing the primary weather barriers (walls and roofs) of likely US housing-stock. Each model was designed to scale based on common residential construction practices and include, to the extent practical, all structurally significant components important for shielding against ionizing radiation. Calculations were performed for floor-specific locations from contaminant deposition on the roof and surrounding ground as well as for computing a weighted-average representative building shielding factor for single- and multi-story detached homes, both with and without basement as well for single-wide manufactured housing-unit.

Crack propagation monitoring in a full-scale aircraft fatigue test based on guided wave-Gaussian mixture model

NASA Astrophysics Data System (ADS)

Qiu, Lei; Yuan, Shenfang; Bao, Qiao; Mei, Hanfei; Ren, Yuanqiang

2016-05-01

For aerospace application of structural health monitoring (SHM) technology, the problem of reliable damage monitoring under time-varying conditions must be addressed and the SHM technology has to be fully validated on real aircraft structures under realistic load conditions on ground before it can reach the status of flight test. In this paper, the guided wave (GW) based SHM method is applied to a full-scale aircraft fatigue test which is one of the most similar test status to the flight test. To deal with the time-varying problem, a GW-Gaussian mixture model (GW-GMM) is proposed. The probability characteristic of GW features, which is introduced by time-varying conditions is modeled by GW-GMM. The weak cumulative variation trend of the crack propagation, which is mixed in time-varying influence can be tracked by the GW-GMM migration during on-line damage monitoring process. A best match based Kullback-Leibler divergence is proposed to measure the GW-GMM migration degree to reveal the crack propagation. The method is validated in the full-scale aircraft fatigue test. The validation results indicate that the reliable crack propagation monitoring of the left landing gear spar and the right wing panel under realistic load conditions are achieved.

Anatomically Realistic Three-Dimensional Meshes of the Pelvic Floor & Anal Canal for Finite Element Analysis

PubMed Central

Noakes, Kimberley F.; Bissett, Ian P.; Pullan, Andrew J.; Cheng, Leo K.

2014-01-01

Three anatomically realistic meshes, suitable for finite element analysis, of the pelvic floor and anal canal regions have been developed to provide a framework with which to examine the mechanics, via finite element analysis of normal function within the pelvic floor. Two cadaver-based meshes were produced using the Visible Human Project (male and female) cryosection data sets, and a third mesh was produced based on MR image data from a live subject. The Visible Man (VM) mesh included 10 different pelvic structures while the Visible Woman and MRI meshes contained 14 and 13 structures respectively. Each image set was digitized and then finite element meshes were created using an iterative fitting procedure with smoothing constraints calculated from ‘L’-curves. These weights produced accurate geometric meshes of each pelvic structure with average Root Mean Square (RMS) fitting errors of less than 1.15 mm. The Visible Human cadaveric data provided high resolution images, however, the cadaveric meshes lacked the normal dynamic form of living tissue and suffered from artifacts related to postmortem changes. The lower resolution MRI mesh was able to accurately portray structure of the living subject and paves the way for dynamic, functional modeling. PMID:18317929

Size effects on insect hovering aerodynamics: an integrated computational study.

PubMed

Liu, H; Aono, H

2009-03-01

Hovering is a miracle of insects that is observed for all sizes of flying insects. Sizing effect in insect hovering on flapping-wing aerodynamics is of interest to both the micro-air-vehicle (MAV) community and also of importance to comparative morphologists. In this study, we present an integrated computational study of such size effects on insect hovering aerodynamics, which is performed using a biology-inspired dynamic flight simulator that integrates the modelling of realistic wing-body morphology, the modelling of flapping-wing and body kinematics and an in-house Navier-Stokes solver. Results of four typical insect hovering flights including a hawkmoth, a honeybee, a fruit fly and a thrips, over a wide range of Reynolds numbers from O(10(4)) to O(10(1)) are presented, which demonstrate the feasibility of the present integrated computational methods in quantitatively modelling and evaluating the unsteady aerodynamics in insect flapping flight. Our results based on realistically modelling of insect hovering therefore offer an integrated understanding of the near-field vortex dynamics, the far-field wake and downwash structures, and their correlation with the force production in terms of sizing and Reynolds number as well as wing kinematics. Our results not only give an integrated interpretation on the similarity and discrepancy of the near- and far-field vortex structures in insect hovering but also demonstrate that our methods can be an effective tool in the MAVs design.

Theory and Simulation of Exoplanetary Atmospheric Haze: Giant Spectral Line Broadening

NASA Astrophysics Data System (ADS)

Sadeghpour, Hossein; Felfeli, Zineb; Kharchenko, Vasili; Babb, James; Vrinceanu, Daniel

2018-01-01

Prominent spectral features in observed transmission spectra of exoplanets are obscured. Atmospheric haze is the leading candidate for the flattening of spectral transmission of expolanetray occultation, but also for solar system planets, Earth and cometary atmospheres. Such spectra which carry information about how the planetary atmospheres become opaque to stellar light in transit, show broad absorption where strong absorption lines from sodium or potassium and water are predicted to exist. In this work, we develop a detailed atomistic theoretical model, taking into account interaction between an atomic or molecular radiator with dust and haze particulates. Our model considers a realistic structure of haze particulates from small seed particles up to sub-micron irregularly shaped aggregates. This theory of interaction between haze and radiator particles allows to consider nearly all realistic structure, size and chemical composition of haze particulates. The computed shift and broadening of emission spectra will include both quasi-static (mean field) and collisional (pressure) shift and broadening. Our spectral calculations will be verified with available laboratory experimental data on spectra of alkali atoms in liquid droplet, solid ice, dust and dense gaseous environments. The simplicity, elegance and generality of the proposed model makes it amenable to a broad community of users in astrophysics and chemistry. The verified models can be used for analysis of emission and absorption spectra of alkali atoms from exoplanets, solar system planets, satellites and comets.

Larval Dispersal Modeling of Pearl Oyster Pinctada margaritifera following Realistic Environmental and Biological Forcing in Ahe Atoll Lagoon

PubMed Central

Thomas, Yoann; Dumas, Franck; Andréfouët, Serge

2014-01-01

Studying the larval dispersal of bottom-dwelling species is necessary to understand their population dynamics and optimize their management. The black-lip pearl oyster (Pinctada margaritifera) is cultured extensively to produce black pearls, especially in French Polynesia's atoll lagoons. This aquaculture relies on spat collection, a process that can be optimized by understanding which factors influence larval dispersal. Here, we investigate the sensitivity of P. margaritifera larval dispersal kernel to both physical and biological factors in the lagoon of Ahe atoll. Specifically, using a validated 3D larval dispersal model, the variability of lagoon-scale connectivity is investigated against wind forcing, depth and location of larval release, destination location, vertical swimming behavior and pelagic larval duration (PLD) factors. The potential connectivity was spatially weighted according to both the natural and cultivated broodstock densities to provide a realistic view of connectivity. We found that the mean pattern of potential connectivity was driven by the southwest and northeast main barotropic circulation structures, with high retention levels in both. Destination locations, spawning sites and PLD were the main drivers of potential connectivity, explaining respectively 26%, 59% and 5% of the variance. Differences between potential and realistic connectivity showed the significant contribution of the pearl oyster broodstock location to its own dynamics. Realistic connectivity showed larger larval supply in the western destination locations, which are preferentially used by farmers for spat collection. In addition, larval supply in the same sectors was enhanced during summer wind conditions. These results provide new cues to understanding the dynamics of bottom-dwelling populations in atoll lagoons, and show how to take advantage of numerical models for pearl oyster management. PMID:24740288

A viscoelastic fluid-structure interaction model for carotid arteries under pulsatile flow.

PubMed

Wang, Zhongjie; Wood, Nigel B; Xu, Xiao Yun

2015-05-01

In this study, a fluid-structure interaction model (FSI) incorporating viscoelastic wall behaviour is developed and applied to an idealized model of the carotid artery under pulsatile flow. The shear and bulk moduli of the arterial wall are described by Prony series, where the parameters can be derived from in vivo measurements. The aim is to develop a fully coupled FSI model that can be applied to realistic arterial geometries with normal or pathological viscoelastic wall behaviour. Comparisons between the numerical and analytical solutions for wall displacements demonstrate that the coupled model is capable of predicting the viscoelastic behaviour of carotid arteries. Comparisons are also made between the solid only and FSI viscoelastic models, and the results suggest that the difference in radial displacement between the two models is negligible. Copyright © 2015 John Wiley & Sons, Ltd.

Tropical Cyclones in the 7-km NASA Global Nature Run for Use in Observing System Simulation Experiments

NASA Technical Reports Server (NTRS)

Reale, Oreste; Achuthavarier, Deepthi; Fuentes, Marangelly; Putman, William M.; Partyka, Gary

2017-01-01

The National Aeronautics and Space Administration (NASA) Nature Run (NR), released for use in Observing System Simulation Experiments (OSSEs), is a 2-year long global non-hydrostatic free-running simulation at a horizontal resolution of 7 km, forced by observed sea-surface temperatures (SSTs) and sea ice, and inclusive of interactive aerosols and trace gases. This article evaluates the NR with respect to tropical cyclone (TC) activity. It is emphasized that to serve as a NR, a long-term simulation must be able to produce realistic TCs, which arise out of realistic large-scale forcings. The presence in the NR of the realistic, relevant dynamical features over the African Monsoon region and the tropical Atlantic is confirmed, along with realistic African Easterly Wave activity. The NR Atlantic TC seasons, produced with 2005 and 2006 SSTs, show interannual variability consistent with observations, with much stronger activity in 2005. An investigation of TC activity over all the other basins (eastern and western North Pacific, North and South Indian Ocean, and Australian region), together with relevant elements of the atmospheric circulation, such as, for example, the Somali Jet and westerly bursts, reveals that the model captures the fundamental aspects of TC seasons in every basin, producing realistic number of TCs with realistic tracks, life spans and structures. This confirms that the NASA NR is a very suitable tool for OSSEs targeting TCs and represents an improvement with respect to previous long simulations that have served the global atmospheric OSSE community.

Tropical Cyclones in the 7km NASA Global Nature Run for use in Observing System Simulation Experiments

PubMed Central

Reale, Oreste; Achuthavarier, Deepthi; Fuentes, Marangelly; Putman, William M.; Partyka, Gary

2018-01-01

The National Aeronautics and Space Administration (NASA) Nature Run (NR), released for use in Observing System Simulation Experiments (OSSEs), is a 2-year long global non-hydrostatic free-running simulation at a horizontal resolution of 7 km, forced by observed sea-surface temperatures (SSTs) and sea ice, and inclusive of interactive aerosols and trace gases. This article evaluates the NR with respect to tropical cyclone (TC) activity. It is emphasized that to serve as a NR, a long-term simulation must be able to produce realistic TCs, which arise out of realistic large-scale forcings. The presence in the NR of the realistic, relevant dynamical features over the African Monsoon region and the tropical Atlantic is confirmed, along with realistic African Easterly Wave activity. The NR Atlantic TC seasons, produced with 2005 and 2006 SSTs, show interannual variability consistent with observations, with much stronger activity in 2005. An investigation of TC activity over all the other basins (eastern and western North Pacific, North and South Indian Ocean, and Australian region), together with relevant elements of the atmospheric circulation, such as, for example, the Somali Jet and westerly bursts, reveals that the model captures the fundamental aspects of TC seasons in every basin, producing realistic number of TCs with realistic tracks, life spans and structures. This confirms that the NASA NR is a very suitable tool for OSSEs targeting TCs and represents an improvement with respect to previous long simulations that have served the global atmospheric OSSE community. PMID:29674806

Tropical Cyclones in the 7km NASA Global Nature Run for use in Observing System Simulation Experiments.

PubMed

Reale, Oreste; Achuthavarier, Deepthi; Fuentes, Marangelly; Putman, William M; Partyka, Gary

2017-01-01

The National Aeronautics and Space Administration (NASA) Nature Run (NR), released for use in Observing System Simulation Experiments (OSSEs), is a 2-year long global non-hydrostatic free-running simulation at a horizontal resolution of 7 km, forced by observed sea-surface temperatures (SSTs) and sea ice, and inclusive of interactive aerosols and trace gases. This article evaluates the NR with respect to tropical cyclone (TC) activity. It is emphasized that to serve as a NR, a long-term simulation must be able to produce realistic TCs, which arise out of realistic large-scale forcings. The presence in the NR of the realistic, relevant dynamical features over the African Monsoon region and the tropical Atlantic is confirmed, along with realistic African Easterly Wave activity. The NR Atlantic TC seasons, produced with 2005 and 2006 SSTs, show interannual variability consistent with observations, with much stronger activity in 2005. An investigation of TC activity over all the other basins (eastern and western North Pacific, North and South Indian Ocean, and Australian region), together with relevant elements of the atmospheric circulation, such as, for example, the Somali Jet and westerly bursts, reveals that the model captures the fundamental aspects of TC seasons in every basin, producing realistic number of TCs with realistic tracks, life spans and structures. This confirms that the NASA NR is a very suitable tool for OSSEs targeting TCs and represents an improvement with respect to previous long simulations that have served the global atmospheric OSSE community.

In Silico Synthesis of Microgel Particles

PubMed Central

2017-01-01

Microgels are colloidal-scale particles individually made of cross-linked polymer networks that can swell and deswell in response to external stimuli, such as changes to temperature or pH. Despite a large amount of experimental activities on microgels, a proper theoretical description based on individual particle properties is still missing due to the complexity of the particles. To go one step further, here we propose a novel methodology to assemble realistic microgel particles in silico. We exploit the self-assembly of a binary mixture composed of tetravalent (cross-linkers) and bivalent (monomer beads) patchy particles under spherical confinement in order to produce fully bonded networks. The resulting structure is then used to generate the initial microgel configuration, which is subsequently simulated with a bead–spring model complemented by a temperature-induced hydrophobic attraction. To validate our assembly protocol, we focus on a small microgel test case and show that we can reproduce the experimental swelling curve by appropriately tuning the confining sphere radius, something that would not be possible with less sophisticated assembly methodologies, e.g., in the case of networks generated from an underlying crystal structure. We further investigate the structure (in reciprocal and real space) and the swelling curves of microgels as a function of temperature, finding that our results are well described by the widely used fuzzy sphere model. This is a first step toward a realistic modeling of microgel particles, which will pave the way for a careful assessment of their elastic properties and effective interactions. PMID:29151620

Hydrodynamic Simulations of the Central Molecular Zone with a Realistic Galactic Potential

NASA Astrophysics Data System (ADS)

Shin, Jihye; Kim, Sungsoo S.; Baba, Junichi; Saitoh, Takayuki R.; Hwang, Jeong-Sun; Chun, Kyungwon; Hozumi, Shunsuke

2017-06-01

We present hydrodynamic simulations of gas clouds inflowing from the disk to a few hundred parsec region of the Milky Way. A gravitational potential is generated to include realistic Galactic structures by using thousands of multipole expansions (MEs) that describe 6.4 million stellar particles of a self-consistent Galaxy simulation. We find that a hybrid ME model, with two different basis sets and a thick-disk correction, accurately reproduces the overall structures of the Milky Way. Through non-axisymmetric Galactic structures of an elongated bar and spiral arms, gas clouds in the disk inflow to the nuclear region and form a central molecular zone-like nuclear ring. We find that the size of the nuclear ring evolves into ˜ 240 {pc} at T˜ 1500 {Myr}, regardless of the initial size. For most simulation runs, the rate of gas inflow to the nuclear region is equilibrated to ˜ 0.02 {M}⊙ {{yr}}-1. The nuclear ring is off-centered, relative to the Galactic center, by the lopsided central mass distribution of the Galaxy model, and thus an asymmetric mass distribution of the nuclear ring arises accordingly. The vertical asymmetry of the Galaxy model also causes the nuclear ring to be tilted along the Galactic plane. During the first ˜100 Myr, the vertical frequency of the gas motion is twice that of the orbital frequency, thus the projected nuclear ring shows a twisted, ∞ -like shape.

Black hole formation from the gravitational collapse of a nonspherical network of structures

NASA Astrophysics Data System (ADS)

Delgado Gaspar, Ismael; Hidalgo, Juan Carlos; Sussman, Roberto A.; Quiros, Israel

2018-05-01

We examine the gravitational collapse and black hole formation of multiple nonspherical configurations constructed from Szekeres dust models with positive spatial curvature that smoothly match to a Schwarzschild exterior. These configurations are made of an almost spherical central core region surrounded by a network of "pancake-like" overdensities and voids with spatial positions prescribed through standard initial conditions. We show that a full collapse into a focusing singularity, without shell crossings appearing before the formation of an apparent horizon, is not possible unless the full configuration becomes exactly or almost spherical. Seeking for black hole formation, we demand that shell crossings are covered by the apparent horizon. This requires very special fine-tuned initial conditions that impose very strong and unrealistic constraints on the total black hole mass and full collapse time. As a consequence, nonspherical nonrotating dust sources cannot furnish even minimally realistic toy models of black hole formation at astrophysical scales: demanding realistic collapse time scales yields huge unrealistic black hole masses, while simulations of typical astrophysical black hole masses collapse in unrealistically small times. We note, however, that the resulting time-mass constraint is compatible with early Universe models of primordial black hole formation, suitable in early dust-like environments. Finally, we argue that the shell crossings appearing when nonspherical dust structures collapse are an indicator that such structures do not form galactic mass black holes but virialize into stable stationary objects.

Probabilistic Structural Analysis Methods (PSAM) for select space propulsion system structural components

NASA Technical Reports Server (NTRS)

Cruse, T. A.

1987-01-01

The objective is the development of several modular structural analysis packages capable of predicting the probabilistic response distribution for key structural variables such as maximum stress, natural frequencies, transient response, etc. The structural analysis packages are to include stochastic modeling of loads, material properties, geometry (tolerances), and boundary conditions. The solution is to be in terms of the cumulative probability of exceedance distribution (CDF) and confidence bounds. Two methods of probability modeling are to be included as well as three types of structural models - probabilistic finite-element method (PFEM); probabilistic approximate analysis methods (PAAM); and probabilistic boundary element methods (PBEM). The purpose in doing probabilistic structural analysis is to provide the designer with a more realistic ability to assess the importance of uncertainty in the response of a high performance structure. Probabilistic Structural Analysis Method (PSAM) tools will estimate structural safety and reliability, while providing the engineer with information on the confidence that should be given to the predicted behavior. Perhaps most critically, the PSAM results will directly provide information on the sensitivity of the design response to those variables which are seen to be uncertain.

Probabilistic Structural Analysis Methods for select space propulsion system structural components (PSAM)

NASA Technical Reports Server (NTRS)

Cruse, T. A.; Burnside, O. H.; Wu, Y.-T.; Polch, E. Z.; Dias, J. B.

1988-01-01

The objective is the development of several modular structural analysis packages capable of predicting the probabilistic response distribution for key structural variables such as maximum stress, natural frequencies, transient response, etc. The structural analysis packages are to include stochastic modeling of loads, material properties, geometry (tolerances), and boundary conditions. The solution is to be in terms of the cumulative probability of exceedance distribution (CDF) and confidence bounds. Two methods of probability modeling are to be included as well as three types of structural models - probabilistic finite-element method (PFEM); probabilistic approximate analysis methods (PAAM); and probabilistic boundary element methods (PBEM). The purpose in doing probabilistic structural analysis is to provide the designer with a more realistic ability to assess the importance of uncertainty in the response of a high performance structure. Probabilistic Structural Analysis Method (PSAM) tools will estimate structural safety and reliability, while providing the engineer with information on the confidence that should be given to the predicted behavior. Perhaps most critically, the PSAM results will directly provide information on the sensitivity of the design response to those variables which are seen to be uncertain.

The statistics of primordial density fluctuations

NASA Astrophysics Data System (ADS)

Barrow, John D.; Coles, Peter

1990-05-01

The statistical properties of the density fluctuations produced by power-law inflation are investigated. It is found that, even the fluctuations present in the scalar field driving the inflation are Gaussian, the resulting density perturbations need not be, due to stochastic variations in the Hubble parameter. All the moments of the density fluctuations are calculated, and is is argued that, for realistic parameter choices, the departures from Gaussian statistics are small and would have a negligible effect on the large-scale structure produced in the model. On the other hand, the model predicts a power spectrum with n not equal to 1, and this could be good news for large-scale structure.

High Order Accurate Finite Difference Modeling of Seismo-Acoustic Wave Propagation in a Moving Atmosphere and a Heterogeneous Earth Model Coupled Across a Realistic Topography

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

Petersson, N. Anders; Sjogreen, Bjorn

Here, we develop a numerical method for simultaneously simulating acoustic waves in a realistic moving atmosphere and seismic waves in a heterogeneous earth model, where the motions are coupled across a realistic topography. We model acoustic wave propagation by solving the linearized Euler equations of compressible fluid mechanics. The seismic waves are modeled by the elastic wave equation in a heterogeneous anisotropic material. The motion is coupled by imposing continuity of normal velocity and normal stresses across the topographic interface. Realistic topography is resolved on a curvilinear grid that follows the interface. The governing equations are discretized using high ordermore » accurate finite difference methods that satisfy the principle of summation by parts. We apply the energy method to derive the discrete interface conditions and to show that the coupled discretization is stable. The implementation is verified by numerical experiments, and we demonstrate a simulation of coupled wave propagation in a windy atmosphere and a realistic earth model with non-planar topography.« less

High Order Accurate Finite Difference Modeling of Seismo-Acoustic Wave Propagation in a Moving Atmosphere and a Heterogeneous Earth Model Coupled Across a Realistic Topography

DOE PAGES

Petersson, N. Anders; Sjogreen, Bjorn

2017-04-18

Here, we develop a numerical method for simultaneously simulating acoustic waves in a realistic moving atmosphere and seismic waves in a heterogeneous earth model, where the motions are coupled across a realistic topography. We model acoustic wave propagation by solving the linearized Euler equations of compressible fluid mechanics. The seismic waves are modeled by the elastic wave equation in a heterogeneous anisotropic material. The motion is coupled by imposing continuity of normal velocity and normal stresses across the topographic interface. Realistic topography is resolved on a curvilinear grid that follows the interface. The governing equations are discretized using high ordermore » accurate finite difference methods that satisfy the principle of summation by parts. We apply the energy method to derive the discrete interface conditions and to show that the coupled discretization is stable. The implementation is verified by numerical experiments, and we demonstrate a simulation of coupled wave propagation in a windy atmosphere and a realistic earth model with non-planar topography.« less

Fully 3D modeling of tokamak vertical displacement events with realistic parameters

NASA Astrophysics Data System (ADS)

Pfefferle, David; Ferraro, Nathaniel; Jardin, Stephen; Bhattacharjee, Amitava

2016-10-01

In this work, we model the complex multi-domain and highly non-linear physics of Vertical Displacement Events (VDEs), one of the most damaging off-normal events in tokamaks, with the implicit 3D extended MHD code M3D-C1. The code has recently acquired the capability to include finite thickness conducting structures within the computational domain. By exploiting the possibility of running a linear 3D calculation on top of a non-linear 2D simulation, we monitor the non-axisymmetric stability and assess the eigen-structure of kink modes as the simulation proceeds. Once a stability boundary is crossed, a fully 3D non-linear calculation is launched for the remainder of the simulation, starting from an earlier time of the 2D run. This procedure, along with adaptive zoning, greatly increases the efficiency of the calculation, and allows to perform VDE simulations with realistic parameters and high resolution. Simulations are being validated with NSTX data where both axisymmetric (toroidally averaged) and non-axisymmetric induced and conductive (halo) currents have been measured. This work is supported by US DOE Grant DE-AC02-09CH11466.

Broadband light sources based on InAs/InGaAs metamorphic quantum dots

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

Seravalli, L.; Trevisi, G.; Frigeri, P.

We propose a design for a semiconductor structure emitting broadband light in the infrared, based on InAs quantum dots (QDs) embedded into a metamorphic step-graded In{sub x}Ga{sub 1−x}As buffer. We developed a model to calculate the metamorphic QD energy levels based on the realistic QD parameters and on the strain-dependent material properties; we validated the results of simulations by comparison with the experimental values. On this basis, we designed a p-i-n heterostructure with a graded index profile toward the realization of an electrically pumped guided wave device. This has been done by adding layers where QDs are embedded in In{submore » x}Al{sub y}Ga{sub 1−x−y}As layers, to obtain a symmetric structure from a band profile point of view. To assess the room temperature electro-luminescence emission spectrum under realistic electrical injection conditions, we performed device-level simulations based on a coupled drift-diffusion and QD rate equation model. On the basis of the device simulation results, we conclude that the present proposal is a viable option to realize broadband light-emitting devices.« less

Structure and Thermodynamics of Polyolefin Melts

NASA Astrophysics Data System (ADS)

Weinhold, J. D.; Curro, J. G.; Habenschuss, A.; Londono, J. D.

1997-03-01

Subtle differences in the intermolecular packing of various polyolefins can create dissimilar permeability and mixing behavior. We have used a combination of the Polymer Reference Interaction Site Model (PRISM) and Monte Carlo simulation to study the structural and thermodynamic properties of realistic models for polyolefins. Results for polyisobutylene and syndiotactic polypropylene will be presented along with comparisons to wide-angle x-ray scattering experiments and properties determined from previous studies of polyethylene and isotactic polypropylene. Our technique uses a Monte Carlo simulation on an isolated molecule to determine the polymer's intramolecular structure. With this information, PRISM theory can predict the intermolecular packing for any liquid density and/or mixture composition in a computationally efficient manner. This approach will then be used to explore the mixing behavior of these polyolefins.

A methodology to model physical contact between structural components in NASTRAN

NASA Technical Reports Server (NTRS)

Prabhu, Annappa A.

1993-01-01

Two components of a structure which are located side by side, will come in contact by certain force and will transfer the compressive force along the contact area. If the force acts in the opposite direction, the elements will separate and no force will be transferred. If this contact is modeled, the load path will be correctly represented, and the load redistribution results in more realistic stresses in the structure. This is accomplished by using different sets of rigid elements for different loading conditions, or by creating multipoint constraint sets. Comparison of these two procedures is presented for a 4 panel unit (PU) stowage drawer installed in an experiment rack in the Spacelab Life Sciences (SLS-2) payload.

Statistical multi-path exposure method for assessing the whole-body SAR in a heterogeneous human body model in a realistic environment.

PubMed

Vermeeren, Günter; Joseph, Wout; Martens, Luc

2013-04-01

Assessing the whole-body absorption in a human in a realistic environment requires a statistical approach covering all possible exposure situations. This article describes the development of a statistical multi-path exposure method for heterogeneous realistic human body models. The method is applied for the 6-year-old Virtual Family boy (VFB) exposed to the GSM downlink at 950 MHz. It is shown that the whole-body SAR does not differ significantly over the different environments at an operating frequency of 950 MHz. Furthermore, the whole-body SAR in the VFB for multi-path exposure exceeds the whole-body SAR for worst-case single-incident plane wave exposure by 3.6%. Moreover, the ICNIRP reference levels are not conservative with the basic restrictions in 0.3% of the exposure samples for the VFB at the GSM downlink of 950 MHz. The homogeneous spheroid with the dielectric properties of the head suggested by the IEC underestimates the absorption compared to realistic human body models. Moreover, the variation in the whole-body SAR for realistic human body models is larger than for homogeneous spheroid models. This is mainly due to the heterogeneity of the tissues and the irregular shape of the realistic human body model compared to homogeneous spheroid human body models. Copyright © 2012 Wiley Periodicals, Inc.

Dark localized structures in a cavity filled with a left-handed material

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

Tlidi, Mustapha; Kockaert, Pascal; Gelens, Lendert

2011-07-15

We consider a nonlinear passive optical cavity filled with left-handed and right-handed materials and driven by a coherent injected beam. We assume that both left-handed and right-handed materials possess a Kerr focusing type of nonlinearity. We show that close to the zero-diffraction regime, high-order diffraction allows us to stabilize dark localized structures in this device. These structures consist of dips in the transverse profile of the intracavity field and do not exist without high-order diffraction. We analyze the snaking bifurcation diagram associated with these structures. Finally, a realistic estimation of the model parameters is provided.

A realistic molecular model of cement hydrates.

PubMed

Pellenq, Roland J-M; Kushima, Akihiro; Shahsavari, Rouzbeh; Van Vliet, Krystyn J; Buehler, Markus J; Yip, Sidney; Ulm, Franz-Josef

2009-09-22

Despite decades of studies of calcium-silicate-hydrate (C-S-H), the structurally complex binder phase of concrete, the interplay between chemical composition and density remains essentially unexplored. Together these characteristics of C-S-H define and modulate the physical and mechanical properties of this "liquid stone" gel phase. With the recent determination of the calcium/silicon (C/S = 1.7) ratio and the density of the C-S-H particle (2.6 g/cm(3)) by neutron scattering measurements, there is new urgency to the challenge of explaining these essential properties. Here we propose a molecular model of C-S-H based on a bottom-up atomistic simulation approach that considers only the chemical specificity of the system as the overriding constraint. By allowing for short silica chains distributed as monomers, dimers, and pentamers, this C-S-H archetype of a molecular description of interacting CaO, SiO2, and H2O units provides not only realistic values of the C/S ratio and the density computed by grand canonical Monte Carlo simulation of water adsorption at 300 K. The model, with a chemical composition of (CaO)(1.65)(SiO2)(H2O)(1.75), also predicts other essential structural features and fundamental physical properties amenable to experimental validation, which suggest that the C-S-H gel structure includes both glass-like short-range order and crystalline features of the mineral tobermorite. Additionally, we probe the mechanical stiffness, strength, and hydrolytic shear response of our molecular model, as compared to experimentally measured properties of C-S-H. The latter results illustrate the prospect of treating cement on equal footing with metals and ceramics in the current application of mechanism-based models and multiscale simulations to study inelastic deformation and cracking.

Sorting cancer karyotypes using double-cut-and-joins, duplications and deletions.

PubMed

Zeira, Ron; Shamir, Ron

2018-05-03

Problems of genome rearrangement are central in both evolution and cancer research. Most genome rearrangement models assume that the genome contains a single copy of each gene and the only changes in the genome are structural, i.e., reordering of segments. In contrast, tumor genomes also undergo numerical changes such as deletions and duplications, and thus the number of copies of genes varies. Dealing with unequal gene content is a very challenging task, addressed by few algorithms to date. More realistic models are needed to help trace genome evolution during tumorigenesis. Here we present a model for the evolution of genomes with multiple gene copies using the operation types double-cut-and-joins, duplications and deletions. The events supported by the model are reversals, translocations, tandem duplications, segmental deletions, and chromosomal amplifications and deletions, covering most types of structural and numerical changes observed in tumor samples. Our goal is to find a series of operations of minimum length that transform one karyotype into the other. We show that the problem is NP-hard and give an integer linear programming formulation that solves the problem exactly under some mild assumptions. We test our method on simulated genomes and on ovarian cancer genomes. Our study advances the state of the art in two ways: It allows a broader set of operations than extant models, thus being more realistic, and it is the first study attempting to reconstruct the full sequence of structural and numerical events during cancer evolution. Code and data are available in https://github.com/Shamir-Lab/Sorting-Cancer-Karyotypes. ronzeira@post.tau.ac.il, rshamir@tau.ac.il. Supplementary data are available at Bioinformatics online.

A virtual reality browser for Space Station models

NASA Technical Reports Server (NTRS)

Goldsby, Michael; Pandya, Abhilash; Aldridge, Ann; Maida, James

1993-01-01

The Graphics Analysis Facility at NASA/JSC has created a visualization and learning tool by merging its database of detailed geometric models with a virtual reality system. The system allows an interactive walk-through of models of the Space Station and other structures, providing detailed realistic stereo images. The user can activate audio messages describing the function and connectivity of selected components within his field of view. This paper presents the issues and trade-offs involved in the implementation of the VR system and discusses its suitability for its intended purposes.

Late time neutrino masses, the LSND experiment, and the cosmic microwave background.

PubMed

Chacko, Z; Hall, Lawrence J; Oliver, Steven J; Perelstein, Maxim

2005-03-25

Models with low-scale breaking of global symmetries in the neutrino sector provide an alternative to the seesaw mechanism for understanding why neutrinos are light. Such models can easily incorporate light sterile neutrinos required by the Liquid Scintillator Neutrino Detector experiment. Furthermore, the constraints on the sterile neutrino properties from nucleosynthesis and large-scale structure can be removed due to the nonconventional cosmological evolution of neutrino masses and densities. We present explicit, fully realistic supersymmetric models, and discuss the characteristic signatures predicted in the angular distributions of the cosmic microwave background.

Forward and inverse effects of the complete electrode model in neonatal EEG

PubMed Central

Lew, S.; Wolters, C. H.

2016-01-01

This paper investigates finite element method-based modeling in the context of neonatal electroencephalography (EEG). In particular, the focus lies on electrode boundary conditions. We compare the complete electrode model (CEM) with the point electrode model (PEM), which is the current standard in EEG. In the CEM, the voltage experienced by an electrode is modeled more realistically as the integral average of the potential distribution over its contact surface, whereas the PEM relies on a point value. Consequently, the CEM takes into account the subelectrode shunting currents, which are absent in the PEM. In this study, we aim to find out how the electrode voltage predicted by these two models differ, if standard size electrodes are attached to a head of a neonate. Additionally, we study voltages and voltage variation on electrode surfaces with two source locations: 1) next to the C6 electrode and 2) directly under the Fz electrode and the frontal fontanel. A realistic model of a neonatal head, including a skull with fontanels and sutures, is used. Based on the results, the forward simulation differences between CEM and PEM are in general small, but significant outliers can occur in the vicinity of the electrodes. The CEM can be considered as an integral part of the outer head model. The outcome of this study helps understanding volume conduction of neonatal EEG, since it enlightens the role of advanced skull and electrode modeling in forward and inverse computations. NEW & NOTEWORTHY The effect of the complete electrode model on electroencephalography forward and inverse computations is explored. A realistic neonatal head model, including a skull structure with fontanels and sutures, is used. The electrode and skull modeling differences are analyzed and compared with each other. The results suggest that the complete electrode model can be considered as an integral part of the outer head model. To achieve optimal source localization results, accurate electrode modeling might be necessary. PMID:27852731

Structure and Agency in Learning: A Critical Realist Theory of the Development of Capacity to Reflect on Academic Practice

ERIC Educational Resources Information Center

Kahn, Peter; Qualter, Anne; Young, Richard

2012-01-01

Theories of learning typically downplay the interplay between social structure and student agency. In this article, we adapt a causal hypothesis from realist social theory and draw on wider perspectives from critical realism to account for the development of capacity to engage in reflection on professional practice in academic roles. We thereby…

Education Catching Up with Science: Preparing Students for Three-Dimensional Literacy in Cell Biology

PubMed Central

Kramer, IJsbrand M.; Dahmani, Hassen-Reda; Delouche, Pamina; Bidabe, Marissa; Schneeberger, Patricia

2012-01-01

The large number of experimentally determined molecular structures has led to the development of a new semiotic system in the life sciences, with increasing use of accurate molecular representations. To determine how this change impacts students’ learning, we incorporated image tests into our introductory cell biology course. Groups of students used a single text dealing with signal transduction, which was supplemented with images made in one of three iconographic styles. Typically, we employed realistic renderings, using computer-generated Protein Data Bank (PDB) structures; realistic-schematic renderings, using shapes inspired by PDB structures; or schematic renderings, using simple geometric shapes to represent cellular components. The control group received a list of keywords. When students were asked to draw and describe the process in their own style and to reply to multiple-choice questions, the three iconographic approaches equally improved the overall outcome of the tests (relative to keywords). Students found the three approaches equally useful but, when asked to select a preferred style, they largely favored a realistic-schematic style. When students were asked to annotate “raw” realistic images, both keywords and schematic representations failed to prepare them for this task. We conclude that supplementary images facilitate the comprehension process and despite their visual clutter, realistic representations do not hinder learning in an introductory course. PMID:23222839

Education catching up with science: preparing students for three-dimensional literacy in cell biology.

PubMed

Kramer, Ijsbrand M; Dahmani, Hassen-Reda; Delouche, Pamina; Bidabe, Marissa; Schneeberger, Patricia

2012-01-01

The large number of experimentally determined molecular structures has led to the development of a new semiotic system in the life sciences, with increasing use of accurate molecular representations. To determine how this change impacts students' learning, we incorporated image tests into our introductory cell biology course. Groups of students used a single text dealing with signal transduction, which was supplemented with images made in one of three iconographic styles. Typically, we employed realistic renderings, using computer-generated Protein Data Bank (PDB) structures; realistic-schematic renderings, using shapes inspired by PDB structures; or schematic renderings, using simple geometric shapes to represent cellular components. The control group received a list of keywords. When students were asked to draw and describe the process in their own style and to reply to multiple-choice questions, the three iconographic approaches equally improved the overall outcome of the tests (relative to keywords). Students found the three approaches equally useful but, when asked to select a preferred style, they largely favored a realistic-schematic style. When students were asked to annotate "raw" realistic images, both keywords and schematic representations failed to prepare them for this task. We conclude that supplementary images facilitate the comprehension process and despite their visual clutter, realistic representations do not hinder learning in an introductory course.

Numerical study of the effects of Planetary Boundary Layer structure on the pollutant dispersion within built-up areas.

PubMed

Miao, Yucong; Liu, Shuhua; Zheng, Yijia; Wang, Shu; Liu, Zhenxin; Zhang, Bihui

2015-06-01

The effects of different Planetary Boundary Layer (PBL) structures on pollutant dispersion processes within two idealized street canyon configurations and a realistic urban area were numerically examined by a Computational Fluid Dynamics (CFD) model. The boundary conditions of different PBL structures/conditions were provided by simulations of the Weather Researching and Forecasting model. The simulated results of the idealized 2D and 3D street canyon experiments showed that the increment of PBL instability favored the downward transport of momentum from the upper flow above the roof to the pedestrian level within the street canyon. As a result, the flow and turbulent fields within the street canyon under the more unstable PBL condition are stronger. Therefore, more pollutants within the street canyon would be removed by the stronger advection and turbulent diffusion processes under the unstable PBL condition. On the contrary, more pollutants would be concentrated in the street canyon under the stable PBL condition. In addition, the simulations of the realistic building cluster experiments showed that the density of buildings was a crucial factor determining the dynamic effects of the PBL structure on the flow patterns. The momentum field within a denser building configuration was mostly transported from the upper flow, and was more sensitive to the PBL structures than that of the sparser building configuration. Finally, it was recommended to use the Mellor-Yamada-Nakanishi-Niino (MYNN) PBL scheme, which can explicitly output the needed turbulent variables, to provide the boundary conditions to the CFD simulation. Copyright © 2015. Published by Elsevier B.V.

Stochastic model for the 3D microstructure of pristine and cyclically aged cathodes in Li-ion batteries

NASA Astrophysics Data System (ADS)

Kuchler, Klaus; Westhoff, Daniel; Feinauer, Julian; Mitsch, Tim; Manke, Ingo; Schmidt, Volker

2018-04-01

It is well-known that the microstructure of electrodes in lithium-ion batteries strongly affects their performance. Vice versa, the microstructure can exhibit strong changes during the usage of the battery due to aging effects. For a better understanding of these effects, mathematical analysis and modeling has turned out to be of great help. In particular, stochastic 3D microstructure models have proven to be a powerful and very flexible tool to generate various kinds of particle-based structures. Recently, such models have been proposed for the microstructure of anodes in lithium-ion energy and power cells. In the present paper, we describe a stochastic modeling approach for the 3D microstructure of cathodes in a lithium-ion energy cell, which differs significantly from the one observed in anodes. The model for the cathode data enhances the ideas of the anode models, which have been developed so far. It is calibrated using 3D tomographic image data from pristine as well as two aged cathodes. A validation based on morphological image characteristics shows that the model is able to realistically describe both, the microstructure of pristine and aged cathodes. Thus, we conclude that the model is suitable to generate virtual, but realistic microstructures of lithium-ion cathodes.

Accurate protein structure modeling using sparse NMR data and homologous structure information.

PubMed

Thompson, James M; Sgourakis, Nikolaos G; Liu, Gaohua; Rossi, Paolo; Tang, Yuefeng; Mills, Jeffrey L; Szyperski, Thomas; Montelione, Gaetano T; Baker, David

2012-06-19

While information from homologous structures plays a central role in X-ray structure determination by molecular replacement, such information is rarely used in NMR structure determination because it can be incorrect, both locally and globally, when evolutionary relationships are inferred incorrectly or there has been considerable evolutionary structural divergence. Here we describe a method that allows robust modeling of protein structures of up to 225 residues by combining (1)H(N), (13)C, and (15)N backbone and (13)Cβ chemical shift data, distance restraints derived from homologous structures, and a physically realistic all-atom energy function. Accurate models are distinguished from inaccurate models generated using incorrect sequence alignments by requiring that (i) the all-atom energies of models generated using the restraints are lower than models generated in unrestrained calculations and (ii) the low-energy structures converge to within 2.0 Å backbone rmsd over 75% of the protein. Benchmark calculations on known structures and blind targets show that the method can accurately model protein structures, even with very remote homology information, to a backbone rmsd of 1.2-1.9 Å relative to the conventional determined NMR ensembles and of 0.9-1.6 Å relative to X-ray structures for well-defined regions of the protein structures. This approach facilitates the accurate modeling of protein structures using backbone chemical shift data without need for side-chain resonance assignments and extensive analysis of NOESY cross-peak assignments.

X-rays from supernova 1987A

NASA Technical Reports Server (NTRS)

Xu, Yueming; Sutherland, Peter; Mccray, Richard; Ross, Randy R.

1988-01-01

Detailed calculations of the development of the X-ray spectrum of 1987A are presented using more realistic models for the supernova composition and density structure provided by Woosley. It is shown how the emergence of the X-ray spectrum depends on the parameters of the model and the nature of its central energy source. It is shown that the soft X-ray spectrum should be dominated by a 6.4 keV Fe K(alpha) emission line that could be observed by a sensitive X-ray telescope.

Future Combat System Spinout 1 Technical Field Test - Establishing and Implementing Models and Simulations System of Systems Verification, Validation and Accreditation Practices, Methodologies and Procedures

DTIC Science & Technology

2009-11-24

assisted by the Brigade Combat Team (BCT) Modernization effort, the use of Models and Simulations ( M &S) becomes more crucial in supporting major...in 2008 via a slice of the Current Force (CF) BCT structure. To ensure realistic operational context, a M &S System-of- Systems (SoS) level...messages, and constructive representation of platforms, vehicles, and terrain. The M &S federation also provided test control, data collection, and live

Modelling Size Structured Food Webs Using a Modified Niche Model with Two Predator Traits

PubMed Central

Klecka, Jan

2014-01-01

The structure of food webs is frequently described using phenomenological stochastic models. A prominent example, the niche model, was found to produce artificial food webs resembling real food webs according to a range of summary statistics. However, the size structure of food webs generated by the niche model and real food webs has not yet been rigorously compared. To fill this void, I use a body mass based version of the niche model and compare prey-predator body mass allometry and predator-prey body mass ratios predicted by the model to empirical data. The results show that the model predicts weaker size structure than observed in many real food webs. I introduce a modified version of the niche model which allows to control the strength of size-dependence of predator-prey links. In this model, optimal prey body mass depends allometrically on predator body mass and on a second trait, such as foraging mode. These empirically motivated extensions of the model allow to represent size structure of real food webs realistically and can be used to generate artificial food webs varying in several aspects of size structure in a controlled way. Hence, by explicitly including the role of species traits, this model provides new opportunities for simulating the consequences of size structure for food web dynamics and stability. PMID:25119999

Novel Multidisciplinary Models Assess the Capabilities of Smart Structures to Manage Vibration, Sound, and Thermal Distortion in Aeropropulsion Components

NASA Technical Reports Server (NTRS)

Saravanos, Dimitris A.

1997-01-01

The development of aeropropulsion components that incorporate "smart" composite laminates with embedded piezoelectric actuators and sensors is expected to ameliorate critical problems in advanced aircraft engines related to vibration, noise emission, and thermal stability. To facilitate the analytical needs of this effort, the NASA Lewis Research Center has developed mechanics and multidisciplinary computational models to analyze the complicated electromechanical behavior of realistic smart-structure configurations operating in combined mechanical, thermal, and acoustic environments. The models have been developed to accommodate the particular geometries, environments, and technical challenges encountered in advanced aircraft engines, yet their unique analytical features are expected to facilitate application of this new technology in a variety of commercial applications.

Comparison of Deterministic and Probabilistic Radial Distribution Systems Load Flow

NASA Astrophysics Data System (ADS)

Gupta, Atma Ram; Kumar, Ashwani

2017-12-01

Distribution system network today is facing the challenge of meeting increased load demands from the industrial, commercial and residential sectors. The pattern of load is highly dependent on consumer behavior and temporal factors such as season of the year, day of the week or time of the day. For deterministic radial distribution load flow studies load is taken as constant. But, load varies continually with a high degree of uncertainty. So, there is a need to model probable realistic load. Monte-Carlo Simulation is used to model the probable realistic load by generating random values of active and reactive power load from the mean and standard deviation of the load and for solving a Deterministic Radial Load Flow with these values. The probabilistic solution is reconstructed from deterministic data obtained for each simulation. The main contribution of the work is: Finding impact of probable realistic ZIP load modeling on balanced radial distribution load flow. Finding impact of probable realistic ZIP load modeling on unbalanced radial distribution load flow. Compare the voltage profile and losses with probable realistic ZIP load modeling for balanced and unbalanced radial distribution load flow.

TMFF-A Two-Bead Multipole Force Field for Coarse-Grained Molecular Dynamics Simulation of Protein.

PubMed

Li, Min; Liu, Fengjiao; Zhang, John Z H

2016-12-13

Coarse-grained (CG) models are desirable for studying large and complex biological systems. In this paper, we propose a new two-bead multipole force field (TMFF) in which electric multipoles up to the quadrupole are included in the CG force field. The inclusion of electric multipoles in the proposed CG force field enables a more realistic description of the anisotropic electrostatic interactions in the protein system and, thus, provides an improvement over the standard isotropic two-bead CG models. In order to test the accuracy of the new CG force field model, extensive molecular dynamics simulations were carried out for a series of benchmark protein systems. These simulation studies showed that the TMFF model can realistically reproduce the structural and dynamical properties of proteins, as demonstrated by the close agreement of the CG results with those from the corresponding all-atom simulations in terms of root-mean-square deviations (RMSDs) and root-mean-square fluctuations (RMSFs) of the protein backbones. The current two-bead model is highly coarse-grained and is 50-fold more efficient than all-atom method in MD simulation of proteins in explicit water.

Vibration suppression and slewing control of a flexible structure

NASA Technical Reports Server (NTRS)

Inman, Daniel J.; Garcia, Ephrahim; Pokines, Brett

1991-01-01

Examined here are the effects of motor dynamics and secondary piezoceramic actuators on vibration suppression during the slewing of flexible structures. The approach focuses on the interaction between the structure, the actuators, and the choice of control law. The results presented here are all simulated, but are based on experimentally determined parameters for the motor, structure, piezoceramic actuators, and piezofilm sensors. The simulation results clearly illustrate that the choice of motor inertia relative to beam inertia makes a critical difference in the performance of the system. In addition, the use of secondary piezoelectric actuators reduces the load requirements on the motor and also reduces the overshoot of the tip deflection. The structures considered here are a beam and a frame. The majority of results are based on a Euler Bernoulli beam model. The slewing frame introduces substantial torsional modes and a more realistic model. The slewing frame results are incomplete and represent work in progress.

User's Guide for ENSAERO_FE Parallel Finite Element Solver

NASA Technical Reports Server (NTRS)

Eldred, Lloyd B.; Guruswamy, Guru P.

1999-01-01

A high fidelity parallel static structural analysis capability is created and interfaced to the multidisciplinary analysis package ENSAERO-MPI of Ames Research Center. This new module replaces ENSAERO's lower fidelity simple finite element and modal modules. Full aircraft structures may be more accurately modeled using the new finite element capability. Parallel computation is performed by breaking the full structure into multiple substructures. This approach is conceptually similar to ENSAERO's multizonal fluid analysis capability. The new substructure code is used to solve the structural finite element equations for each substructure in parallel. NASTRANKOSMIC is utilized as a front end for this code. Its full library of elements can be used to create an accurate and realistic aircraft model. It is used to create the stiffness matrices for each substructure. The new parallel code then uses an iterative preconditioned conjugate gradient method to solve the global structural equations for the substructure boundary nodes.

Blind tests of methods for InSight Mars mission: Open scientific challenge

NASA Astrophysics Data System (ADS)

Clinton, John; Ceylan, Savas; Giardini, Domenico; Khan, Amir; van Driel, Martin; Böse, Maren; Euchner, Fabian; Garcia, Raphael F.; Drilleau, Mélanie; Lognonné, Philippe; Panning, Mark; Banerdt, Bruce

2017-04-01

The Marsquake Service (MQS) will be the ground segment service within the InSight mission to Mars, which will deploy a single seismic station on Elysium Planitia in November 2018. The main tasks of the MQS are the identification and characterisation of seismicity, and managing the Martian seismic event catalogue. In advance of the mission, we have developed a series of single station event location methods that rely on a priori 1D and 3D structural models. In coordination with the Mars Structural Service, we expect to use iterative inversion techniques to revise these structural models and event locations. In order to seek methodological advancements and test our current approaches, we have designed a blind test case using Martian synthetics combined with realistic noise models for the Martian surface. We invite all scientific parties that are interested in single station approaches and in exploring the Martian time-series to participate and contribute to our blind test. We anticipate the test will can improve currently developed location and structural inversion techniques, and also allow us explore new single station techniques for moment tensor and magnitude determination. The waveforms for our test case are computed employing AxiSEM and Instaseis for a randomly selected 1D background model and event catalogue that is statistically consistent with our current expectation of Martian seismicity. Realistic seismic surface noise is superimposed to generate a continuous time-series spanning 6 months. The event catalog includes impacts as well as Martian quakes. The temporal distribution of the seismicity in the timeseries, as well as the true structural model, are not be known to any participating parties including MQS till the end of competition. We provide our internal tools such as event location codes, suite of background models, seismic phase travel times, in order to support researchers who are willing to use/improve our current methods. Following the deadline of our blind test in late 2017, we plan to combine all outcomes in an article with all participants as co-authors.

Comparison between two photovoltaic module models based on transistors

NASA Astrophysics Data System (ADS)

Saint-Eve, Frédéric; Sawicki, Jean-Paul; Petit, Pierre; Maufay, Fabrice; Aillerie, Michel

2018-05-01

The main objective of this paper is to verify the possibility to reduce to a simple electronic circuit with very few components the behavior simulation of an un-shaded photovoltaic (PV) module. Particularly, two models based on well-tried elementary structures, i.e., the Darlington structure in first model and the voltage regulation with programmable Zener diode in the second are analyzed. Specifications extracted from the behavior of a real I-V characteristic of a panel are considered and the principal electrical variables are deduced. The two models are expected to match with open circuit voltage, maximum power point (MPP) and short circuit current, without forgetting realistic current slopes on the both sides of MPP. The robustness is mentioned when irradiance varies and is considered as an additional fundamental property. For both models, two simulations are done to identify influence of some parameters. In the first model, a parameter allowing to adjust current slope on left side of MPP proves to be also important for the calculation of open circuit voltage. Besides this model does not authorize an entirely adjustment of I-V characteristic and MPP moves significantly away from real value when irradiance increases. On the contrary, the second model seems to have only qualities: open circuit voltage is easy to calculate, current slopes are realistic and there is perhaps a good robustness when irradiance variations are simulated by adjusting short circuit current of PV module. We have shown that these two simplified models are expected to make reliable and easier simulations of complex PV architecture integrating many different devices like PV modules or other renewable energy sources and storage capacities coupled in parallel association.

Optimizing Learning. Proceedings of the Annual Society for the Advancement of Gifted Education Conference (6th, Edmonton, Alberta, Canada, September 29-30, 1995).

ERIC Educational Resources Information Center

Society for the Advancement of Gifted Education, Calgary (Alberta).

This conference proceedings focuses on structuring classrooms to optimize learning among Alberta (Canada) gifted students. The first paper, "Optimizing Parent Potential" (Trudy A. Harrold), describes a model and a process for helping parents acquire knowledge, organize their thinking, and act from a realistic base when dealing with their gifted…

Problem Posing with Realistic Mathematics Education Approach in Geometry Learning

NASA Astrophysics Data System (ADS)

Mahendra, R.; Slamet, I.; Budiyono

2017-09-01

One of the difficulties of students in the learning of geometry is on the subject of plane that requires students to understand the abstract matter. The aim of this research is to determine the effect of Problem Posing learning model with Realistic Mathematics Education Approach in geometry learning. This quasi experimental research was conducted in one of the junior high schools in Karanganyar, Indonesia. The sample was taken using stratified cluster random sampling technique. The results of this research indicate that the model of Problem Posing learning with Realistic Mathematics Education Approach can improve students’ conceptual understanding significantly in geometry learning especially on plane topics. It is because students on the application of Problem Posing with Realistic Mathematics Education Approach are become to be active in constructing their knowledge, proposing, and problem solving in realistic, so it easier for students to understand concepts and solve the problems. Therefore, the model of Problem Posing learning with Realistic Mathematics Education Approach is appropriately applied in mathematics learning especially on geometry material. Furthermore, the impact can improve student achievement.

Monte Carlo generators for studies of the 3D structure of the nucleon

DOE PAGES

Avakian, Harut; D'Alesio, U.; Murgia, F.

2015-01-23

In this study, extraction of transverse momentum and space distributions of partons from measurements of spin and azimuthal asymmetries requires development of a self consistent analysis framework, accounting for evolution effects, and allowing control of systematic uncertainties due to variations of input parameters and models. Development of realistic Monte-Carlo generators, accounting for TMD evolution effects, spin-orbit and quark-gluon correlations will be crucial for future studies of quark-gluon dynamics in general and 3D structure of the nucleon in particular.

Human Brain Modeling with Its Anatomical Structure and Realistic Material Properties for Brain Injury Prediction.

PubMed

Atsumi, Noritoshi; Nakahira, Yuko; Tanaka, Eiichi; Iwamoto, Masami

2018-05-01

Impairments of executive brain function after traumatic brain injury (TBI) due to head impacts in traffic accidents need to be obviated. Finite element (FE) analyses with a human brain model facilitate understanding of the TBI mechanisms. However, conventional brain FE models do not suitably describe the anatomical structure in the deep brain, which is a critical region for executive brain function, and the material properties of brain parenchyma. In this study, for better TBI prediction, a novel brain FE model with anatomical structure in the deep brain was developed. The developed model comprises a constitutive model of brain parenchyma considering anisotropy and strain rate dependency. Validation was performed against postmortem human subject test data associated with brain deformation during head impact. Brain injury analyses were performed using head acceleration curves obtained from reconstruction analysis of rear-end collision with a human whole-body FE model. The difference in structure was found to affect the regions of strain concentration, while the difference in material model contributed to the peak strain value. The injury prediction result by the proposed model was consistent with the characteristics in the neuroimaging data of TBI patients due to traffic accidents.

Sustainability of transport structures - some aspects of the nonlinear reliability assessment

NASA Astrophysics Data System (ADS)

Pukl, Radomír; Sajdlová, Tereza; Strauss, Alfred; Lehký, David; Novák, Drahomír

2017-09-01

Efficient techniques for both nonlinear numerical analysis of concrete structures and advanced stochastic simulation methods have been combined in order to offer an advanced tool for assessment of realistic behaviour, failure and safety assessment of transport structures. The utilized approach is based on randomization of the non-linear finite element analysis of the structural models. Degradation aspects such as carbonation of concrete can be accounted in order predict durability of the investigated structure and its sustainability. Results can serve as a rational basis for the performance and sustainability assessment based on advanced nonlinear computer analysis of the structures of transport infrastructure such as bridges or tunnels. In the stochastic simulation the input material parameters obtained from material tests including their randomness and uncertainty are represented as random variables or fields. Appropriate identification of material parameters is crucial for the virtual failure modelling of structures and structural elements. Inverse analysis using artificial neural networks and virtual stochastic simulations approach is applied to determine the fracture mechanical parameters of the structural material and its numerical model. Structural response, reliability and sustainability have been investigated on different types of transport structures made from various materials using the above mentioned methodology and tools.

A preliminary theoretical line-blanketed model solar photosphere

NASA Technical Reports Server (NTRS)

Kurucz, R. L.

1974-01-01

In the theoretical approach to model-atmosphere construction, all opacities are computed theoretically and the temperature-pressure structure is determined by conservation of energy. Until recently, this has not been a very useful method for later type stars, because the line opacity was both poorly known and difficult to calculate. However, methods have now been developed that are capable of representing the line opacity well enough for construction of realistic models. A preliminary theoretical solar model is presented that produces closer agreement with observation than has been heretofore possible. The qualitative advantages and shortcomings of this model are discussued and projected improvements are outlined.

A New Signal Model for Axion Cavity Searches from N -body Simulations

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

Lentz, Erik W.; Rosenberg, Leslie J.; Quinn, Thomas R.

2017-08-20

Signal estimates for direct axion dark matter (DM) searches have used the isothermal sphere halo model for the last several decades. While insightful, the isothermal model does not capture effects from a halo’s infall history nor the influence of baryonic matter, which has been shown to significantly influence a halo’s inner structure. The high resolution of cavity axion detectors can make use of modern cosmological structure-formation simulations, which begin from realistic initial conditions, incorporate a wide range of baryonic physics, and are capable of resolving detailed structure. This work uses a state-of-the-art cosmological N -body+Smoothed-Particle Hydrodynamics simulation to develop anmore » improved signal model for axion cavity searches. Signal shapes from a class of galaxies encompassing the Milky Way are found to depart significantly from the isothermal sphere. A new signal model for axion detectors is proposed and projected sensitivity bounds on the Axion DM eXperiment (ADMX) data are presented.« less

A New Signal Model for Axion Cavity Searches from N-body Simulations

NASA Astrophysics Data System (ADS)

Lentz, Erik W.; Quinn, Thomas R.; Rosenberg, Leslie J.; Tremmel, Michael J.

2017-08-01

Signal estimates for direct axion dark matter (DM) searches have used the isothermal sphere halo model for the last several decades. While insightful, the isothermal model does not capture effects from a halo’s infall history nor the influence of baryonic matter, which has been shown to significantly influence a halo’s inner structure. The high resolution of cavity axion detectors can make use of modern cosmological structure-formation simulations, which begin from realistic initial conditions, incorporate a wide range of baryonic physics, and are capable of resolving detailed structure. This work uses a state-of-the-art cosmological N-body+Smoothed-Particle Hydrodynamics simulation to develop an improved signal model for axion cavity searches. Signal shapes from a class of galaxies encompassing the Milky Way are found to depart significantly from the isothermal sphere. A new signal model for axion detectors is proposed and projected sensitivity bounds on the Axion DM eXperiment (ADMX) data are presented.

Ab initio quantum mechanical calculation of the reaction probability for the Cl-+PH2Cl→ClPH2+Cl- reaction

NASA Astrophysics Data System (ADS)

Farahani, Pooria; Lundberg, Marcus; Karlsson, Hans O.

2013-11-01

The SN2 substitution reactions at phosphorus play a key role in organic and biological processes. Quantum molecular dynamics simulations have been performed to study the prototype reaction Cl-+PH2Cl→ClPH2+Cl-, using one and two-dimensional models. A potential energy surface, showing an energy well for a transition complex, was generated using ab initio electronic structure calculations. The one-dimensional model is essentially reflection free, whereas the more realistic two-dimensional model displays involved resonance structures in the reaction probability. The reaction rate is almost two orders of magnitude smaller for the two-dimensional compared to the one-dimensional model. Energetic errors in the potential energy surface is estimated to affect the rate by only a factor of two. This shows that for these types of reactions it is more important to increase the dimensionality of the modeling than to increase the accuracy of the electronic structure calculation.

A minimal model of neutrino flavor

NASA Astrophysics Data System (ADS)

Luhn, Christoph; Parattu, Krishna Mohan; Wingerter, Akın

2012-12-01

Models of neutrino mass which attempt to describe the observed lepton mixing pattern are typically based on discrete family symmetries with a non-Abelian and one or more Abelian factors. The latter so-called shaping symmetries are imposed in order to yield a realistic phenomenology by forbidding unwanted operators. Here we propose a supersymmetric model of neutrino flavor which is based on the group T 7 and does not require extra {Z} N or U(1) factors in the Yukawa sector, which makes it the smallest realistic family symmetry that has been considered so far. At leading order, the model predicts tribimaximal mixing which arises completely accidentally from a combination of the T 7 Clebsch-Gordan coefficients and suitable flavon alignments. Next-to-leading order (NLO) operators break the simple tribimaximal structure and render the model compatible with the recent results of the Daya Bay and Reno collaborations which have measured a reactor angle of around 9°. Problematic NLO deviations of the other two mixing angles can be controlled in an ultraviolet completion of the model. The vacuum alignment mechanism that we use necessitates the introduction of a hidden flavon sector that transforms under a {Z} 6 symmetry, thereby spoiling the minimality of our model whose flavor symmetry is then T 7 × {Z} 6.

Plot Scale Factor Models for Standard Orthographic Views

ERIC Educational Resources Information Center

Osakue, Edward E.

2007-01-01

Geometric modeling provides graphic representations of real or abstract objects. Realistic representation requires three dimensional (3D) attributes since natural objects have three principal dimensions. CAD software gives the user the ability to construct realistic 3D models of objects, but often prints of these models must be generated on two…

Electronic Structure and Transport in Magnetic Multilayers

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

None

2008-02-18

ORNL assisted Seagate Recording Heads Operations in the development of CIPS pin Valves for application as read sensors in hard disk drives. Personnel at ORNL were W. H. Butler and Xiaoguang Zhang. Dr. Olle Heinonen from Seagate RHO also participated. ORNL provided codes and materials parameters that were used by Seagate to model CIP GMR in their heads. The objectives were to: (1) develop a linearized Boltzmann transport code for describing CIP GMR based on realistic models of the band structure and interfaces in materials in CIP spin valves in disk drive heads; (2) calculate the materials parameters needed asmore » inputs to the Boltzmann code; and (3) transfer the technology to Seagate Recording Heads.« less

Study of optimum methods of optical communication

NASA Technical Reports Server (NTRS)

Harger, R. O.

1972-01-01

Optimum methods of optical communication accounting for the effects of the turbulent atmosphere and quantum mechanics, both by the semi-classical method and the full-fledged quantum theoretical model are described. A concerted effort to apply the techniques of communication theory to the novel problems of optical communication by a careful study of realistic models and their statistical descriptions, the finding of appropriate optimum structures and the calculation of their performance and, insofar as possible, comparing them to conventional and other suboptimal systems are discussed. In this unified way the bounds on performance and the structure of optimum communication systems for transmission of information, imaging, tracking, and estimation can be determined for optical channels.

Improved transcranial magnetic stimulation coil design with realistic head modeling

NASA Astrophysics Data System (ADS)

Crowther, Lawrence; Hadimani, Ravi; Jiles, David

2013-03-01

We are investigating Transcranial magnetic stimulation (TMS) as a noninvasive technique based on electromagnetic induction which causes stimulation of the neurons in the brain. TMS can be used as a pain-free alternative to conventional electroconvulsive therapy (ECT) which is still widely implemented for treatment of major depression. Development of improved TMS coils capable of stimulating subcortical regions could also allow TMS to replace invasive deep brain stimulation (DBS) which requires surgical implantation of electrodes in the brain. Our new designs allow new applications of the technique to be established for a variety of diagnostic and therapeutic applications of psychiatric disorders and neurological diseases. Calculation of the fields generated inside the head is vital for the use of this method for treatment. In prior work we have implemented a realistic head model, incorporating inhomogeneous tissue structures and electrical conductivities, allowing the site of neuronal activation to be accurately calculated. We will show how we utilize this model in the development of novel TMS coil designs to improve the depth of penetration and localization of stimulation produced by stimulator coils.

Biodiversity maintenance in food webs with regulatory environmental feedbacks.

PubMed

Bagdassarian, Carey K; Dunham, Amy E; Brown, Christopher G; Rauscher, Daniel

2007-04-21

Although the food web is one of the most fundamental and oldest concepts in ecology, elucidating the strategies and structures by which natural communities of species persist remains a challenge to empirical and theoretical ecologists. We show that simple regulatory feedbacks between autotrophs and their environment when embedded within complex and realistic food-web models enhance biodiversity. The food webs are generated through the niche-model algorithm and coupled with predator-prey dynamics, with and without environmental feedbacks at the autotroph level. With high probability and especially at lower, more realistic connectance levels, regulatory environmental feedbacks result in fewer species extinctions, that is, in increased species persistence. These same feedback couplings, however, also sensitize food webs to environmental stresses leading to abrupt collapses in biodiversity with increased forcing. Feedback interactions between species and their material environments anchor food-web persistence, adding another dimension to biodiversity conservation. We suggest that the regulatory features of two natural systems, deep-sea tubeworms with their microbial consortia and a soil ecosystem manifesting adaptive homeostatic changes, can be embedded within niche-model food-web dynamics.

Challenges in structural approaches to cell modeling

PubMed Central

Im, Wonpil; Liang, Jie; Olson, Arthur; Zhou, Huan-Xiang; Vajda, Sandor; Vakser, Ilya A.

2016-01-01

Computational modeling is essential for structural characterization of biomolecular mechanisms across the broad spectrum of scales. Adequate understanding of biomolecular mechanisms inherently involves our ability to model them. Structural modeling of individual biomolecules and their interactions has been rapidly progressing. However, in terms of the broader picture, the focus is shifting toward larger systems, up to the level of a cell. Such modeling involves a more dynamic and realistic representation of the interactomes in vivo, in a crowded cellular environment, as well as membranes and membrane proteins, and other cellular components. Structural modeling of a cell complements computational approaches to cellular mechanisms based on differential equations, graph models, and other techniques to model biological networks, imaging data, etc. Structural modeling along with other computational and experimental approaches will provide a fundamental understanding of life at the molecular level and lead to important applications to biology and medicine. A cross section of diverse approaches presented in this review illustrates the developing shift from the structural modeling of individual molecules to that of cell biology. Studies in several related areas are covered: biological networks; automated construction of three-dimensional cell models using experimental data; modeling of protein complexes; prediction of non-specific and transient protein interactions; thermodynamic and kinetic effects of crowding; cellular membrane modeling; and modeling of chromosomes. The review presents an expert opinion on the current state-of-the-art in these various aspects of structural modeling in cellular biology, and the prospects of future developments in this emerging field. PMID:27255863

Preliminary Groundwater Simulations To Compare Different Reconstruction Methods of 3-d Alluvial Heterogeneity

NASA Astrophysics Data System (ADS)

Teles, V.; de Marsily, G.; Delay, F.; Perrier, E.

Alluvial floodplains are extremely heterogeneous aquifers, whose three-dimensional structures are quite difficult to model. In general, when representing such structures, the medium heterogeneity is modeled with classical geostatistical or Boolean meth- ods. Another approach, still in its infancy, is called the genetic method because it simulates the generation of the medium by reproducing sedimentary processes. We developed a new genetic model to obtain a realistic three-dimensional image of allu- vial media. It does not simulate the hydrodynamics of sedimentation but uses semi- empirical and statistical rules to roughly reproduce fluvial deposition and erosion. The main processes, either at the stream scale or at the plain scale, are modeled by simple rules applied to "sediment" entities or to conceptual "erosion" entities. The model was applied to a several kilometer long portion of the Aube River floodplain (France) and reproduced the deposition and erosion cycles that occurred during the inferred climate periods (15 000 BP to present). A three-dimensional image of the aquifer was gener- ated, by extrapolating the two-dimensional information collected on a cross-section of the floodplain. Unlike geostatistical methods, this extrapolation does not use a statis- tical spatial analysis of the data, but a genetic analysis, which leads to a more realistic structure. Groundwater flow and transport simulations in the alluvium were carried out with a three-dimensional flow code or simulator (MODFLOW), using different rep- resentations of the alluvial reservoir of the Aube River floodplain: first an equivalent homogeneous medium, and then different heterogeneous media built either with the traditional geostatistical approach simulating the permeability distribution, or with the new genetic model presented here simulating sediment facies. In the latter case, each deposited entity of a given lithology was assigned a constant hydraulic conductivity value. Results of these models have been compared to assess the value of the genetic approach and will be presented.

Parametric Studies for Scenario Earthquakes: Site Effects and Differential Motion

NASA Astrophysics Data System (ADS)

Panza, G. F.; Panza, G. F.; Romanelli, F.

2001-12-01

In presence of strong lateral heterogeneities, the generation of local surface waves and local resonance can give rise to a complicated pattern in the spatial groundshaking scenario. For any object of the built environment with dimensions greater than the characteristic length of the ground motion, different parts of its foundations can experience severe non-synchronous seismic input. In order to perform an accurate estimate of the site effects, and of differential motion, in realistic geometries, it is necessary to make a parametric study that takes into account the complex combination of the source and propagation parameters. The computation of a wide set of time histories and spectral information, corresponding to possible seismotectonic scenarios for different source and structural models, allows us the construction of damage scenarios that are out of reach of stochastic models. Synthetic signals, to be used as seismic input in a subsequent engineering analysis, e.g. for the design of earthquake-resistant structures or for the estimation of differential motion, can be produced at a very low cost/benefit ratio. We illustrate the work done in the framework of a large international cooperation following the guidelines of the UNESCO IUGS IGCP Project 414 "Realistic Modeling of Seismic Input for Megacities and Large Urban Areas" and show the very recent numerical experiments carried out within the EC project "Advanced methods for assessing the seismic vulnerability of existing motorway bridges" (VAB) to assess the importance of non-synchronous seismic excitation of long structures. >http://www.ictp.trieste.it/www_users/sand/projects.html

Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm.

PubMed

Yu, Isseki; Mori, Takaharu; Ando, Tadashi; Harada, Ryuhei; Jung, Jaewoon; Sugita, Yuji; Feig, Michael

2016-11-01

Biological macromolecules function in highly crowded cellular environments. The structure and dynamics of proteins and nucleic acids are well characterized in vitro, but in vivo crowding effects remain unclear. Using molecular dynamics simulations of a comprehensive atomistic model cytoplasm we found that protein-protein interactions may destabilize native protein structures, whereas metabolite interactions may induce more compact states due to electrostatic screening. Protein-protein interactions also resulted in significant variations in reduced macromolecular diffusion under crowded conditions, while metabolites exhibited significant two-dimensional surface diffusion and altered protein-ligand binding that may reduce the effective concentration of metabolites and ligands in vivo. Metabolic enzymes showed weak non-specific association in cellular environments attributed to solvation and entropic effects. These effects are expected to have broad implications for the in vivo functioning of biomolecules. This work is a first step towards physically realistic in silico whole-cell models that connect molecular with cellular biology.

Health Monitoring for Airframe Structural Characterization

NASA Technical Reports Server (NTRS)

Munns, Thomas E.; Kent, Renee M.; Bartolini, Antony; Gause, Charles B.; Borinski, Jason W.; Dietz, Jason; Elster, Jennifer L.; Boyd, Clark; Vicari, Larry; Ray, Asok;

Dynamic Response of an Energy Harvesting Device Under Realistic Flow Conditions

NASA Astrophysics Data System (ADS)

O'Connor, Joseph; Revell, Alistair

2017-11-01

The need for reliable, cost-efficient, green energy alternatives has led to increased research in the area of energy harvesting. One approach to energy harvesting is to take advantage of self-sustaining flow-induced vibrations. Through the use of a piezoelectric flag, the mechanical strain from the flapping motion can be converted into electrical energy. While such devices show a lot of promise, the fluid-structure-electrical interactions are highly nonlinear and their response to off-design variations in flow conditions, such as those likely to be encountered upon deployment, is relatively unexplored. The purpose of the present work is to examine how a representative energy harvesting device performs in realistic atmospheric flow conditions involving wind gusts with spatial and temporal variations. A recently developed lattice-Boltzmann-immersed boundary-finite element model is used to perform fully-coupled 3D simulations of the fluid-structure system. For a range of unsteady flow conditions the resulting flow features and structural motion are examined and key behaviour modes are mapped out. The findings of this work will be particularly relevant for self-powered remote sensing networks, which often require deployment in unpredictable and varied environments.

Inter-Individual Variability in Human Response to Low-Dose Ionizing Radiation, Final Report

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

Rocke, David

2016-08-01

In order to investigate inter-individual variability in response to low-dose ionizing radiation, we are working with three models, 1) in-vivo irradiated human skin, for which we have a realistic model, but with few subjects, all from a previous project, 2) ex-vivo irradiated human skin, for which we also have a realistic model, though with the limitations involved in keeping skin pieces alive in media, and 3) MatTek EpiDermFT skin plugs, which provides a more realistic model than cell lines, which is more controllable than human samples.

A reverse engineering algorithm for neural networks, applied to the subthalamopallidal network of basal ganglia.

PubMed

Floares, Alexandru George

2008-01-01

Modeling neural networks with ordinary differential equations systems is a sensible approach, but also very difficult. This paper describes a new algorithm based on linear genetic programming which can be used to reverse engineer neural networks. The RODES algorithm automatically discovers the structure of the network, including neural connections, their signs and strengths, estimates its parameters, and can even be used to identify the biophysical mechanisms involved. The algorithm is tested on simulated time series data, generated using a realistic model of the subthalamopallidal network of basal ganglia. The resulting ODE system is highly accurate, and results are obtained in a matter of minutes. This is because the problem of reverse engineering a system of coupled differential equations is reduced to one of reverse engineering individual algebraic equations. The algorithm allows the incorporation of common domain knowledge to restrict the solution space. To our knowledge, this is the first time a realistic reverse engineering algorithm based on linear genetic programming has been applied to neural networks.

[Ionic liquid based ultrasonication-assisted extraction of essential oil from the leaves of Persicaria minor and conductor-like screening model for realistic solvents study].

PubMed

Habib, Ullah; Cecilia, D Wilfred; Maizatul, S Shaharun

2017-06-08

Ionic liquids (ILs) based ultrasonic-assisted extract has been applied for the extraction of essential oil from Persicaria minor leaves. The effects of temperature, sonication time, and particle size of the plant material on the yield of essential oil were investigated. Among the different ILs employed, 1-ethyl-3-methylimidazolium acetate was the most effective, providing a 9.55% yield of the essential oil under optimum conditions (70 ℃, 25 min, IL:hexane ratio of 7:10 (v/v), particle size 60-80 mesh). The performance of 1-ethyl-3-methylimidazolium acetate in the extraction was attributed to its low viscosity and ability to disintegrate the structural matrix of the plant material. The ability of 1-ethyl-3-methylimidazolium acetate was also confirmed using the conductor like-screening model for realistic solvents. This research proves that ILs can be used to extract essential oils from lignocellulosic biomass.

Cosmic-ray propagation with DRAGON2: I. numerical solver and astrophysical ingredients

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

Evoli, Carmelo; Gaggero, Daniele; Vittino, Andrea

2017-02-01

We present version 2 of the DRAGON code designed for computing realistic predictions of the CR densities in the Galaxy. The code numerically solves the interstellar CR transport equation (including inhomogeneous and anisotropic diffusion, either in space and momentum, advective transport and energy losses), under realistic conditions. The new version includes an updated numerical solver and several models for the astrophysical ingredients involved in the transport equation. Improvements in the accuracy of the numerical solution are proved against analytical solutions and in reference diffusion scenarios. The novel features implemented in the code allow to simulate the diverse scenarios proposed tomore » reproduce the most recent measurements of local and diffuse CR fluxes, going beyond the limitations of the homogeneous galactic transport paradigm. To this end, several applications using DRAGON2 are presented as well. This new version facilitates the users to include their own physical models by means of a modular C++ structure.« less

Mathematical models to characterize early epidemic growth: A Review

PubMed Central

Chowell, Gerardo; Sattenspiel, Lisa; Bansal, Shweta; Viboud, Cécile

2016-01-01

There is a long tradition of using mathematical models to generate insights into the transmission dynamics of infectious diseases and assess the potential impact of different intervention strategies. The increasing use of mathematical models for epidemic forecasting has highlighted the importance of designing reliable models that capture the baseline transmission characteristics of specific pathogens and social contexts. More refined models are needed however, in particular to account for variation in the early growth dynamics of real epidemics and to gain a better understanding of the mechanisms at play. Here, we review recent progress on modeling and characterizing early epidemic growth patterns from infectious disease outbreak data, and survey the types of mathematical formulations that are most useful for capturing a diversity of early epidemic growth profiles, ranging from sub-exponential to exponential growth dynamics. Specifically, we review mathematical models that incorporate spatial details or realistic population mixing structures, including meta-population models, individual-based network models, and simple SIR-type models that incorporate the effects of reactive behavior changes or inhomogeneous mixing. In this process, we also analyze simulation data stemming from detailed large-scale agent-based models previously designed and calibrated to study how realistic social networks and disease transmission characteristics shape early epidemic growth patterns, general transmission dynamics, and control of international disease emergencies such as the 2009 A/H1N1 influenza pandemic and the 2014-15 Ebola epidemic in West Africa. PMID:27451336

Mathematical models to characterize early epidemic growth: A review

NASA Astrophysics Data System (ADS)

Chowell, Gerardo; Sattenspiel, Lisa; Bansal, Shweta; Viboud, Cécile

2016-09-01

There is a long tradition of using mathematical models to generate insights into the transmission dynamics of infectious diseases and assess the potential impact of different intervention strategies. The increasing use of mathematical models for epidemic forecasting has highlighted the importance of designing reliable models that capture the baseline transmission characteristics of specific pathogens and social contexts. More refined models are needed however, in particular to account for variation in the early growth dynamics of real epidemics and to gain a better understanding of the mechanisms at play. Here, we review recent progress on modeling and characterizing early epidemic growth patterns from infectious disease outbreak data, and survey the types of mathematical formulations that are most useful for capturing a diversity of early epidemic growth profiles, ranging from sub-exponential to exponential growth dynamics. Specifically, we review mathematical models that incorporate spatial details or realistic population mixing structures, including meta-population models, individual-based network models, and simple SIR-type models that incorporate the effects of reactive behavior changes or inhomogeneous mixing. In this process, we also analyze simulation data stemming from detailed large-scale agent-based models previously designed and calibrated to study how realistic social networks and disease transmission characteristics shape early epidemic growth patterns, general transmission dynamics, and control of international disease emergencies such as the 2009 A/H1N1 influenza pandemic and the 2014-2015 Ebola epidemic in West Africa.

Experimental and computational analysis of sound absorption behavior in needled nonwovens

NASA Astrophysics Data System (ADS)

Soltani, Parham; Azimian, Mehdi; Wiegmann, Andreas; Zarrebini, Mohammad

2018-07-01

In this paper application of X-ray micro-computed tomography (μCT) together with fluid simulation techniques to predict sound absorption characteristics of needled nonwovens is discussed. Melt-spun polypropylene fibers of different fineness were made on an industrial scale compact melt spinning line. A conventional batt forming-needling line was used to prepare the needled samples. The normal incidence sound absorption coefficients were measured using impedance tube method. Realistic 3D images of samples at micron-level spatial resolution were obtained using μCT. Morphology of fabrics was characterized in terms of porosity, fiber diameter distribution, fiber curliness and pore size distribution from high-resolution realistic 3D images using GeoDict software. In order to calculate permeability and flow resistivity of media, fluid flow was simulated by numerically solving incompressible laminar Newtonian flow through the 3D pore space of realistic structures. Based on the flow resistivity, the frequency-dependent acoustic absorption coefficient of the needled nonwovens was predicted using the empirical model of Delany and Bazley (1970) and its associated modified models. The results were compared and validated with the corresponding experimental results. Based on morphological analysis, it was concluded that for a given weight per unit area, finer fibers yield to presence of higher number of fibers in the samples. This results in formation of smaller and more tortuous pores, which in turn leads to increase in flow resistivity of media. It was established that, among the empirical models, Mechel modification to Delany and Bazley model had superior predictive ability when compared to that of the original Delany and Bazley model at frequency range of 100-5000 Hz and is well suited to polypropylene needled nonwovens.

An Anisotropic Multiphysics Model for Intervertebral Disk

PubMed Central

Gao, Xin; Zhu, Qiaoqiao; Gu, Weiyong

2016-01-01

Intervertebral disk (IVD) is the largest avascular structure in human body, consisting of three types of charged hydrated soft tissues. Its mechanical behavior is nonlinear and anisotropic, due mainly to nonlinear interactions among different constituents within tissues. In this study, a more realistic anisotropic multiphysics model was developed based on the continuum mixture theory and employed to characterize the couplings of multiple physical fields in the IVD. Numerical simulations demonstrate that this model is capable of systematically predicting the mechanical and electrochemical signals within the disk under various loading conditions, which is essential in understanding the mechanobiology of IVD. PMID:27099402

Effect of conductor geometry on source localization: Implications for epilepsy studies

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

Schlitt, H.; Heller, L.; Best, E.

1994-07-01

We shall discuss the effects of conductor geometry on source localization for applications in epilepsy studies. The most popular conductor model for clinical MEG studies is a homogeneous sphere. However, several studies have indicated that a sphere is a poor model for the head when the sources are deep, as is the case for epileptic foci in the mesial temporal lobe. We believe that replacing the spherical model with a more realistic one in the inverse fitting procedure will improve the accuracy of localizing epileptic sources. In order to include a realistic head model in the inverse problem, we mustmore » first solve the forward problem for the realistic conductor geometry. We create a conductor geometry model from MR images, and then solve the forward problem via a boundary integral equation for the electric potential due to a specified primary source. One the electric potential is known, the magnetic field can be calculated directly. The most time-intensive part of the problem is generating the conductor model; fortunately, this needs to be done only once for each patient. It takes little time to change the primary current and calculate a new magnetic field for use in the inverse fitting procedure. We present the results of a series of computer simulations in which we investigate the localization accuracy due to replacing the spherical model with the realistic head model in the inverse fitting procedure. The data to be fit consist of a computer generated magnetic field due to a known current dipole in a realistic head model, with added noise. We compare the localization errors when this field is fit using a spherical model to the fit using a realistic head model. Using a spherical model is comparable to what is usually done when localizing epileptic sources in humans, where the conductor model used in the inverse fitting procedure does not correspond to the actual head.« less

Flow structure and heat exchange analysis in internal cooling channel of gas turbine blade

NASA Astrophysics Data System (ADS)

Szwaba, Ryszard; Kaczynski, Piotr; Doerffer, Piotr; Telega, Janusz

2016-08-01

This paper presents the study of the flow structure and heat transfer, and also their correlations on the four walls of a radial cooling passage model of a gas turbine blade. The investigations focus on heat transfer and aerodynamic measurements in the channel, which is an accurate representation of the configuration used in aeroengines. Correlations for the heat transfer coefficient and the pressure drop used in the design of radial cooling passages are often developed from simplified models. It is important to note that real engine passages do not have perfect rectangular cross sections, but include corner fillet, ribs with fillet radii and special orientation. Therefore, this work provides detailed fluid flow and heat transfer data for a model of radial cooling geometry which possesses very realistic features.

An integrated QSAR-PBK/D modelling approach for predicting detoxification and DNA adduct formation of 18 acyclic food-borne α,β-unsaturated aldehydes.

PubMed

Kiwamoto, R; Spenkelink, A; Rietjens, I M C M; Punt, A

2015-01-01

Acyclic α,β-unsaturated aldehydes present in food raise a concern because the α,β-unsaturated aldehyde moiety is considered a structural alert for genotoxicity. However, controversy remains on whether in vivo at realistic dietary exposure DNA adduct formation is significant. The aim of the present study was to develop physiologically based kinetic/dynamic (PBK/D) models to examine dose-dependent detoxification and DNA adduct formation of a group of 18 food-borne acyclic α,β-unsaturated aldehydes without 2- or 3-alkylation, and with no more than one conjugated double bond. Parameters for the PBK/D models were obtained using quantitative structure-activity relationships (QSARs) defined with a training set of six selected aldehydes. Using the QSARs, PBK/D models for the other 12 aldehydes were defined. Results revealed that DNA adduct formation in the liver increases with decreasing bulkiness of the molecule especially due to less efficient detoxification. 2-Propenal (acrolein) was identified to induce the highest DNA adduct levels. At realistic dietary intake, the predicted DNA adduct levels for all aldehydes were two orders of magnitude lower than endogenous background levels observed in disease free human liver, suggesting that for all 18 aldehydes DNA adduct formation is negligible at the relevant levels of dietary intake. The present study provides a proof of principle for the use of QSAR-based PBK/D modelling to facilitate group evaluations and read-across in risk assessment. Copyright © 2014 Elsevier Inc. All rights reserved.

Global Modeling of Spur Formation in Spiral Galaxies

NASA Astrophysics Data System (ADS)

Shetty, Rahul; Ostriker, Eve C.

2006-08-01

We investigate the formation of substructure in spiral galaxies using global MHD simulations, including gas self-gravity. Local modeling by Kim & Ostriker previously showed that self-gravity and magnetic fields cause rapid growth of overdensities in spiral arms; differential compression of gas flowing through the arms then results in the formation of sheared structures in the interarms. These sheared structures resemble features described as spurs or feathers in optical and IR observations of many spiral galaxies. Global modeling extends previous local models by including the full effects of curvilinear coordinates, a realistic log-spiral perturbation, self-gravitational contribution from five radial wavelengths of the spiral shock, and variation of density and epicyclic frequency with radius. We show that with realistic Toomre Q-values self-gravity and galactic differential rotation produce filamentary gaseous structures with kiloparsec-scale separations, regardless of the strength-or even presence-of a stellar spiral potential. However, a sufficiently strong spiral potential is required to produce true spurs, consisting of interarm structures emerging from gas concentrations in the main spiral arms. In models where Q is initially constant, filaments due to interarm self-gravity grow mainly in the outer regions, whereas true arm spurs grow only in the inner regions. For models with Q~R, outer regions are intrinsically more stable, so background interarm filaments do not grow, but arm spurs can develop if the spiral potential is strong. Unlike independently growing background filaments, the orientation of arm spurs depends on galactic location. Inside corotation, spurs emanate outward, on the convex side of the arm; outside corotation, spurs grow inward, on the concave side of the arm. Based on orientation and the relation to arm clumps, it is possible to distinguish true spurs that originate as instabilities in the arms from independently growing background filaments. We measure spur spacings of ~3-5 times the Jeans length in the arm and arm clump masses of ~107 Msolar. Finally, we have also studied models without self-gravity, finding that magnetic fields suppress a purely hydrodynamic instability recently proposed by Wada & Koda as a means of growing interarm spurs and feathers. Our models also suggest that magnetic fields are important in preserving grand-design spiral structure when gas in the arms fragments via self-gravity into GMCs.

Methodological Developments in Geophysical Assimilation Modeling

NASA Astrophysics Data System (ADS)

Christakos, George

2005-06-01

This work presents recent methodological developments in geophysical assimilation research. We revisit the meaning of the term "solution" of a mathematical model representing a geophysical system, and we examine its operational formulations. We argue that an assimilation solution based on epistemic cognition (which assumes that the model describes incomplete knowledge about nature and focuses on conceptual mechanisms of scientific thinking) could lead to more realistic representations of the geophysical situation than a conventional ontologic assimilation solution (which assumes that the model describes nature as is and focuses on form manipulations). Conceptually, the two approaches are fundamentally different. Unlike the reasoning structure of conventional assimilation modeling that is based mainly on ad hoc technical schemes, the epistemic cognition approach is based on teleologic criteria and stochastic adaptation principles. In this way some key ideas are introduced that could open new areas of geophysical assimilation to detailed understanding in an integrated manner. A knowledge synthesis framework can provide the rational means for assimilating a variety of knowledge bases (general and site specific) that are relevant to the geophysical system of interest. Epistemic cognition-based assimilation techniques can produce a realistic representation of the geophysical system, provide a rigorous assessment of the uncertainty sources, and generate informative predictions across space-time. The mathematics of epistemic assimilation involves a powerful and versatile spatiotemporal random field theory that imposes no restriction on the shape of the probability distributions or the form of the predictors (non-Gaussian distributions, multiple-point statistics, and nonlinear models are automatically incorporated) and accounts rigorously for the uncertainty features of the geophysical system. In the epistemic cognition context the assimilation concept may be used to investigate critical issues related to knowledge reliability, such as uncertainty due to model structure error (conceptual uncertainty).

A methodology for generating normal and pathological brain perfusion SPECT images for evaluation of MRI/SPECT fusion methods: application in epilepsy

NASA Astrophysics Data System (ADS)

Grova, C.; Jannin, P.; Biraben, A.; Buvat, I.; Benali, H.; Bernard, A. M.; Scarabin, J. M.; Gibaud, B.

2003-12-01

Quantitative evaluation of brain MRI/SPECT fusion methods for normal and in particular pathological datasets is difficult, due to the frequent lack of relevant ground truth. We propose a methodology to generate MRI and SPECT datasets dedicated to the evaluation of MRI/SPECT fusion methods and illustrate the method when dealing with ictal SPECT. The method consists in generating normal or pathological SPECT data perfectly aligned with a high-resolution 3D T1-weighted MRI using realistic Monte Carlo simulations that closely reproduce the response of a SPECT imaging system. Anatomical input data for the SPECT simulations are obtained from this 3D T1-weighted MRI, while functional input data result from an inter-individual analysis of anatomically standardized SPECT data. The method makes it possible to control the 'brain perfusion' function by proposing a theoretical model of brain perfusion from measurements performed on real SPECT images. Our method provides an absolute gold standard for assessing MRI/SPECT registration method accuracy since, by construction, the SPECT data are perfectly registered with the MRI data. The proposed methodology has been applied to create a theoretical model of normal brain perfusion and ictal brain perfusion characteristic of mesial temporal lobe epilepsy. To approach realistic and unbiased perfusion models, real SPECT data were corrected for uniform attenuation, scatter and partial volume effect. An anatomic standardization was used to account for anatomic variability between subjects. Realistic simulations of normal and ictal SPECT deduced from these perfusion models are presented. The comparison of real and simulated SPECT images showed relative differences in regional activity concentration of less than 20% in most anatomical structures, for both normal and ictal data, suggesting realistic models of perfusion distributions for evaluation purposes. Inter-hemispheric asymmetry coefficients measured on simulated data were found within the range of asymmetry coefficients measured on corresponding real data. The features of the proposed approach are compared with those of other methods previously described to obtain datasets appropriate for the assessment of fusion methods.

Strategic directions for agent-based modeling: avoiding the YAAWN syndrome.

PubMed

O'Sullivan, David; Evans, Tom; Manson, Steven; Metcalf, Sara; Ligmann-Zielinska, Arika; Bone, Chris

In this short communication, we examine how agent-based modeling has become common in land change science and is increasingly used to develop case studies for particular times and places. There is a danger that the research community is missing a prime opportunity to learn broader lessons from the use of agent-based modeling (ABM), or at the very least not sharing these lessons more widely. How do we find an appropriate balance between empirically rich, realistic models and simpler theoretically grounded models? What are appropriate and effective approaches to model evaluation in light of uncertainties not only in model parameters but also in model structure? How can we best explore hybrid model structures that enable us to better understand the dynamics of the systems under study, recognizing that no single approach is best suited to this task? Under what circumstances - in terms of model complexity, model evaluation, and model structure - can ABMs be used most effectively to lead to new insight for stakeholders? We explore these questions in the hope of helping the growing community of land change scientists using models in their research to move from 'yet another model' to doing better science with models.

Thermodynamics of β-amyloid fibril formation

NASA Astrophysics Data System (ADS)

Tiana, G.; Simona, F.; Broglia, R. A.; Colombo, G.

2004-05-01

Amyloid fibers are aggregates of proteins. They are built out of a peptide called β-amyloid (Aβ) containing between 41 and 43 residues, produced by the action of an enzyme which cleaves a much larger protein known as the amyloid precursor protein (APP). X-ray diffraction experiments have shown that these fibrils are rich in β-structures, whereas the shape of the peptide displays an α-helix structure within the APP in its biologically active conformation. A realistic model of fibril formation is developed based on the 17 residues Aβ12-28 amyloid peptide, which has been shown to form fibrils structurally similar to those of the whole Aβ peptide. With the help of physical arguments and in keeping with experimental findings, the Aβ12-28 monomer is assumed to be in four possible states (i.e., native helix conformation, β-hairpin, globular low-energy state, and unfolded state). Making use of these monomeric states, oligomers (dimers, tertramers, and octamers) were constructed. With the help of short, detailed molecular dynamics calculations of the three monomers and of a variety of oligomers, energies for these structures were obtained. Making use of these results within the framework of a simple yet realistic model to describe the entropic terms associated with the variety of amyloid conformations, a phase diagram can be calculated of the whole many-body system, leading to a thermodynamical picture in overall agreement with the experimental findings. In particular, the existence of micellar metastable states seem to be a key issue to determine the thermodynamical properties of the system.

Plasma Radiation and Acceleration Effectiveness of CME-driven Shocks

NASA Astrophysics Data System (ADS)

Gopalswamy, N.; Schmidt, J. M.

2008-05-01

CME-driven shocks are effective radio radiation generators and accelerators for Solar Energetic Particles (SEPs). We present simulated 3 D time-dependent radio maps of second order plasma radiation generated by CME- driven shocks. The CME with its shock is simulated with the 3 D BATS-R-US CME model developed at the University of Michigan. The radiation is simulated using a kinetic plasma model that includes shock drift acceleration of electrons and stochastic growth theory of Langmuir waves. We find that in a realistic 3 D environment of magnetic field and solar wind outflow of the Sun the CME-driven shock shows a detailed spatial structure of the density, which is responsible for the fine structure of type II radio bursts. We also show realistic 3 D reconstructions of the magnetic cloud field of the CME, which is accelerated outward by magnetic buoyancy forces in the diverging magnetic field of the Sun. The CME-driven shock is reconstructed by tomography using the maximum jump in the gradient of the entropy. In the vicinity of the shock we determine the Alfven speed of the plasma. This speed profile controls how steep the shock can grow and how stable the shock remains while propagating away from the Sun. Only a steep shock can provide for an effective particle acceleration.

Plasma radiation and acceleration effectiveness of CME-driven shocks

NASA Astrophysics Data System (ADS)

Schmidt, Joachim

CME-driven shocks are effective radio radiation generators and accelerators for Solar Energetic Particles (SEPs). We present simulated 3 D time-dependent radio maps of second order plasma radiation generated by CME-driven shocks. The CME with its shock is simulated with the 3 D BATS-R-US CME model developed at the University of Michigan. The radiation is simulated using a kinetic plasma model that includes shock drift acceleration of electrons and stochastic growth theory of Langmuir waves. We find that in a realistic 3 D environment of magnetic field and solar wind outflow of the Sun the CME-driven shock shows a detailed spatial structure of the density, which is responsible for the fine structure of type II radio bursts. We also show realistic 3 D reconstructions of the magnetic cloud field of the CME, which is accelerated outward by magnetic buoyancy forces in the diverging magnetic field of the Sun. The CME-driven shock is reconstructed by tomography using the maximum jump in the gradient of the entropy. In the vicinity of the shock we determine the Alfven speed of the plasma. This speed profile controls how steep the shock can grow and how stable the shock remains while propagating away from the Sun. Only a steep shock can provide for an effective particle acceleration.

Seven challenges for metapopulation models of epidemics, including households models.

PubMed

Ball, Frank; Britton, Tom; House, Thomas; Isham, Valerie; Mollison, Denis; Pellis, Lorenzo; Scalia Tomba, Gianpaolo

2015-03-01

This paper considers metapopulation models in the general sense, i.e. where the population is partitioned into sub-populations (groups, patches,...), irrespective of the biological interpretation they have, e.g. spatially segregated large sub-populations, small households or hosts themselves modelled as populations of pathogens. This framework has traditionally provided an attractive approach to incorporating more realistic contact structure into epidemic models, since it often preserves analytic tractability (in stochastic as well as deterministic models) but also captures the most salient structural inhomogeneity in contact patterns in many applied contexts. Despite the progress that has been made in both the theory and application of such metapopulation models, we present here several major challenges that remain for future work, focusing on models that, in contrast to agent-based ones, are amenable to mathematical analysis. The challenges range from clarifying the usefulness of systems of weakly-coupled large sub-populations in modelling the spread of specific diseases to developing a theory for endemic models with household structure. They include also developing inferential methods for data on the emerging phase of epidemics, extending metapopulation models to more complex forms of human social structure, developing metapopulation models to reflect spatial population structure, developing computationally efficient methods for calculating key epidemiological model quantities, and integrating within- and between-host dynamics in models. Copyright © 2014 The Authors. Published by Elsevier B.V. All rights reserved.

Electrical Wave Propagation in a Minimally Realistic Fiber Architecture Model of the Left Ventricle

NASA Astrophysics Data System (ADS)

Song, Xianfeng; Setayeshgar, Sima

2006-03-01

Experimental results indicate a nested, layered geometry for the fiber surfaces of the left ventricle, where fiber directions are approximately aligned in each surface and gradually rotate through the thickness of the ventricle. Numerical and analytical results have highlighted the importance of this rotating anisotropy and its possible destabilizing role on the dynamics of scroll waves in excitable media with application to the heart. Based on the work of Peskin[1] and Peskin and McQueen[2], we present a minimally realistic model of the left ventricle that adequately captures the geometry and anisotropic properties of the heart as a conducting medium while being easily parallelizable, and computationally more tractable than fully realistic anatomical models. Complementary to fully realistic and anatomically-based computational approaches, studies using such a minimal model with the addition of successively realistic features, such as excitation-contraction coupling, should provide unique insight into the basic mechanisms of formation and obliteration of electrical wave instabilities. We describe our construction, implementation and validation of this model. [1] C. S. Peskin, Communications on Pure and Applied Mathematics 42, 79 (1989). [2] C. S. Peskin and D. M. McQueen, in Case Studies in Mathematical Modeling: Ecology, Physiology, and Cell Biology, 309(1996)

Simulation capability for dynamics of two-body flexible satellites

NASA Technical Reports Server (NTRS)

Austin, F.; Zetkov, G.

1973-01-01

An analysis and computer program were prepared to realistically simulate the dynamic behavior of a class of satellites consisting of two end bodies separated by a connecting structure. The shape and mass distribution of the flexible end bodies are arbitrary; the connecting structure is flexible but massless and is capable of deployment and retraction. Fluid flowing in a piping system and rigid moving masses, representing a cargo elevator or crew members, have been modeled. Connecting structure characteristics, control systems, and externally applied loads are modeled in easily replaced subroutines. Subroutines currently available include a telescopic beam-type connecting structure as well as attitude, deployment, spin and wobble control. In addition, a unique mass balance control system was developed to sense and balance mass shifts due to the motion of a cargo elevator. The mass of the cargo may vary through a large range. Numerical results are discussed for various types of runs.

Hybrid test on building structures using electrodynamic fatigue test machine

NASA Astrophysics Data System (ADS)

Xu, Zhao-Dong; Wang, Kai-Yang; Guo, Ying-Qing; Wu, Min-Dong; Xu, Meng

2017-01-01

Hybrid simulation is an advanced structural dynamic experimental method that combines experimental physical models with analytical numerical models. It has increasingly been recognised as a powerful methodology to evaluate structural nonlinear components and systems under realistic operating conditions. One of the barriers for this advanced testing is the lack of flexible software for hybrid simulation using heterogeneous experimental equipment. In this study, an electrodynamic fatigue test machine is made and a MATLAB program is developed for hybrid simulation. Compared with the servo-hydraulic system, electrodynamic fatigue test machine has the advantages of small volume, easy operation and fast response. A hybrid simulation is conducted to verify the flexibility and capability of the whole system whose experimental substructure is one spring brace and numerical substructure is a two-storey steel frame structure. Experimental and numerical results show the feasibility and applicability of the whole system.

Structure-based discovery and binding site analysis of histamine receptor ligands.

PubMed

Kiss, Róbert; Keserű, György M

2016-12-01

The application of structure-based drug discovery in histamine receptor projects was previously hampered by the lack of experimental structures. The publication of the first X-ray structure of the histamine H1 receptor has been followed by several successful virtual screens and binding site analysis studies of H1-antihistamines. This structure together with several other recently solved aminergic G-protein coupled receptors (GPCRs) enabled the development of more realistic homology models for H2, H3 and H4 receptors. Areas covered: In this paper, the authors review the development of histamine receptor models and their application in drug discovery. Expert opinion: In the authors' opinion, the application of atomistic histamine receptor models has played a significant role in understanding key ligand-receptor interactions as well as in the discovery of novel chemical starting points. The recently solved H1 receptor structure is a major milestone in structure-based drug discovery; however, our analysis also demonstrates that for building H3 and H4 receptor homology models, other GPCRs may be more suitable as templates. For these receptors, the authors envisage that the development of higher quality homology models will significantly contribute to the discovery and optimization of novel H3 and H4 ligands.

Strategic directions for agent-based modeling: avoiding the YAAWN syndrome

PubMed Central

O’Sullivan, David; Evans, Tom; Manson, Steven; Metcalf, Sara; Ligmann-Zielinska, Arika; Bone, Chris

2015-01-01

In this short communication, we examine how agent-based modeling has become common in land change science and is increasingly used to develop case studies for particular times and places. There is a danger that the research community is missing a prime opportunity to learn broader lessons from the use of agent-based modeling (ABM), or at the very least not sharing these lessons more widely. How do we find an appropriate balance between empirically rich, realistic models and simpler theoretically grounded models? What are appropriate and effective approaches to model evaluation in light of uncertainties not only in model parameters but also in model structure? How can we best explore hybrid model structures that enable us to better understand the dynamics of the systems under study, recognizing that no single approach is best suited to this task? Under what circumstances – in terms of model complexity, model evaluation, and model structure – can ABMs be used most effectively to lead to new insight for stakeholders? We explore these questions in the hope of helping the growing community of land change scientists using models in their research to move from ‘yet another model’ to doing better science with models. PMID:27158257

Tertiary structure-based analysis of microRNA–target interactions

PubMed Central

Gan, Hin Hark; Gunsalus, Kristin C.

2013-01-01

Current computational analysis of microRNA interactions is based largely on primary and secondary structure analysis. Computationally efficient tertiary structure-based methods are needed to enable more realistic modeling of the molecular interactions underlying miRNA-mediated translational repression. We incorporate algorithms for predicting duplex RNA structures, ionic strength effects, duplex entropy and free energy, and docking of duplex–Argonaute protein complexes into a pipeline to model and predict miRNA–target duplex binding energies. To ensure modeling accuracy and computational efficiency, we use an all-atom description of RNA and a continuum description of ionic interactions using the Poisson–Boltzmann equation. Our method predicts the conformations of two constructs of Caenorhabditis elegans let-7 miRNA–target duplexes to an accuracy of ∼3.8 Å root mean square distance of their NMR structures. We also show that the computed duplex formation enthalpies, entropies, and free energies for eight miRNA–target duplexes agree with titration calorimetry data. Analysis of duplex–Argonaute docking shows that structural distortions arising from single-base-pair mismatches in the seed region influence the activity of the complex by destabilizing both duplex hybridization and its association with Argonaute. Collectively, these results demonstrate that tertiary structure-based modeling of miRNA interactions can reveal structural mechanisms not accessible with current secondary structure-based methods. PMID:23417009

Model-based auralizations of violin sound trends accompanying plate-bridge tuning or holding.

PubMed

Bissinger, George; Mores, Robert

2015-04-01

To expose systematic trends in violin sound accompanying "tuning" only the plates or only the bridge, the first structural acoustics-based model auralizations of violin sound were created by passing a bowed-string driving force measured at the bridge of a solid body violin through the dynamic filter (DF) model radiativity profile "filter" RDF(f) (frequency-dependent pressure per unit driving force, free-free suspension, anechoic chamber). DF model auralizations for the more realistic case of a violin held/played in a reverberant auditorium reveal that holding the violin greatly diminishes its low frequency response, an effect only weakly compensated for by auditorium reverberation.

Structure and anomalous solubility for hard spheres in an associating lattice gas model.

PubMed

Szortyka, Marcia M; Girardi, Mauricio; Henriques, Vera B; Barbosa, Marcia C

2012-08-14

In this paper we investigate the solubility of a hard-sphere gas in a solvent modeled as an associating lattice gas. The solution phase diagram for solute at 5% is compared with the phase diagram of the original solute free model. Model properties are investigated both through Monte Carlo simulations and a cluster approximation. The model solubility is computed via simulations and is shown to exhibit a minimum as a function of temperature. The line of minimum solubility (TmS) coincides with the line of maximum density (TMD) for different solvent chemical potentials, in accordance with the literature on continuous realistic models and on the "cavity" picture.

Natural Characteristics of The Herringbone Gear Transmission System

NASA Astrophysics Data System (ADS)

Zhou, Jianxing; Sun, Wenlei; Cao, Li

2018-03-01

According to the structure characteristics of herringbone gear transmission, a more realistic dynamic model of the transmission system is built in consideration of the inner excitation, herringbone gears axial positioning and sliding bearing etc. The natural frequencies of the system are calculated, and the vibration mode is divided into symmetric vibration modes and asymmetric vibration modes. The time history of system dynamic force is obtained by solving the dynamic model. The effects of the connection stiffness of left and right sides of herringbone gears and axial support stiffness on natural characteristics are discussed.

Realistic Gamow shell model for resonance and continuum in atomic nuclei

NASA Astrophysics Data System (ADS)

Xu, F. R.; Sun, Z. H.; Wu, Q.; Hu, B. S.; Dai, S. J.

2018-02-01

The Gamow shell model can describe resonance and continuum for atomic nuclei. The model is established in the complex-moment (complex-k) plane of the Berggren coordinates in which bound, resonant and continuum states are treated on equal footing self-consistently. In the present work, the realistic nuclear force, CD Bonn, has been used. We have developed the full \\hat{Q}-box folded-diagram method to derive the realistic effective interaction in the model space which is nondegenerate and contains resonance and continuum channels. The CD-Bonn potential is renormalized using the V low-k method. With choosing 16O as the inert core, we have applied the Gamow shell model to oxygen isotopes.

Road safety forecasts in five European countries using structural time series models.

PubMed

Antoniou, Constantinos; Papadimitriou, Eleonora; Yannis, George

2014-01-01

Modeling road safety development is a complex task and needs to consider both the quantifiable impact of specific parameters as well as the underlying trends that cannot always be measured or observed. The objective of this research is to apply structural time series models for obtaining reliable medium- to long-term forecasts of road traffic fatality risk using data from 5 countries with different characteristics from all over Europe (Cyprus, Greece, Hungary, Norway, and Switzerland). Two structural time series models are considered: (1) the local linear trend model and the (2) latent risk time series model. Furthermore, a structured decision tree for the selection of the applicable model for each situation (developed within the Road Safety Data, Collection, Transfer and Analysis [DaCoTA] research project, cofunded by the European Commission) is outlined. First, the fatality and exposure data that are used for the development of the models are presented and explored. Then, the modeling process is presented, including the model selection process, introduction of intervention variables, and development of mobility scenarios. The forecasts using the developed models appear to be realistic and within acceptable confidence intervals. The proposed methodology is proved to be very efficient for handling different cases of data availability and quality, providing an appropriate alternative from the family of structural time series models in each country. A concluding section providing perspectives and directions for future research is presented.

Novel high-fidelity realistic explosion damage simulation for urban environments

NASA Astrophysics Data System (ADS)

Liu, Xiaoqing; Yadegar, Jacob; Zhu, Youding; Raju, Chaitanya; Bhagavathula, Jaya

2010-04-01

Realistic building damage simulation has a significant impact in modern modeling and simulation systems especially in diverse panoply of military and civil applications where these simulation systems are widely used for personnel training, critical mission planning, disaster management, etc. Realistic building damage simulation should incorporate accurate physics-based explosion models, rubble generation, rubble flyout, and interactions between flying rubble and their surrounding entities. However, none of the existing building damage simulation systems sufficiently faithfully realize the criteria of realism required for effective military applications. In this paper, we present a novel physics-based high-fidelity and runtime efficient explosion simulation system to realistically simulate destruction to buildings. In the proposed system, a family of novel blast models is applied to accurately and realistically simulate explosions based on static and/or dynamic detonation conditions. The system also takes account of rubble pile formation and applies a generic and scalable multi-component based object representation to describe scene entities and highly scalable agent-subsumption architecture and scheduler to schedule clusters of sequential and parallel events. The proposed system utilizes a highly efficient and scalable tetrahedral decomposition approach to realistically simulate rubble formation. Experimental results demonstrate that the proposed system has the capability to realistically simulate rubble generation, rubble flyout and their primary and secondary impacts on surrounding objects including buildings, constructions, vehicles and pedestrians in clusters of sequential and parallel damage events.

A conformally flat realistic anisotropic model for a compact star

NASA Astrophysics Data System (ADS)

Ivanov, B. V.

2018-04-01

A physically realistic stellar model with a simple expression for the energy density and conformally flat interior is found. The relations between the different conditions are used without graphic proofs. It may represent a real pulsar.

Assessment of concrete damage and strength degradation caused by reinforcement corrosion

NASA Astrophysics Data System (ADS)

Nepal, Jaya; Chen, Hua-Peng

2015-07-01

Structural performance deterioration of reinforced concrete structures has been extensively investigated, but very limited studies have been carried out to investigate the effect of reinforcement corrosion on time-dependent reliability with consideration of the influence of mechanical characteristics of the bond interface due to corrosion. This paper deals with how corrosion in reinforcement creates different types of defects in concrete structure and how they are responsible for the structural capacity deterioration of corrosion affected reinforced concrete structures during their service life. Cracking in cover concrete due to reinforcement corrosion is investigated by using rebar-concrete model and realistic concrete properties. The flexural strength deterioration is analytically predicted on the basis of bond strength evolution due to reinforcement corrosion, which is examined by the experimental data available. The time-dependent reliability analysis is undertaken to calculate the life time structural reliability of corrosion damaged concrete structures by stochastic deterioration modelling of reinforced concrete. The results from the numerical example show that the proposed approach is capable of evaluating the damage caused by reinforcement corrosion and also predicting the structural reliability of concrete structures during their lifecycle.

Construction of hexahedral finite element mesh capturing realistic geometries of a petroleum reserve

DOE PAGES

Park, Byoung Yoon; Roberts, Barry L.; Sobolik, Steven R.

2017-07-27

The three-dimensional finite element mesh capturing realistic geometries of the Bayou Choctaw site has been constructed using the sonar and seismic survey data obtained from the field. The mesh consists of hexahedral elements because the salt constitutive model is coded using hexahedral elements. Various ideas and techniques to construct finite element mesh capturing artificially and naturally formed geometries are provided. The techniques to reduce the number of elements as much as possible to save on computer run time while maintaining the computational accuracy is also introduced. The steps and methodologies could be applied to construct the meshes of Big Hill,more » Bryan Mound, and West Hackberry strategic petroleum reserve sites. The methodology could be applied to the complicated shape masses for various civil and geological structures.« less

Evaluation of Model Microphysics Within Precipitation Bands of Extratropical Cyclones

NASA Technical Reports Server (NTRS)

Colle, Brian A.; Yu, Ruyi; Molthan, Andrew L.; Nesbitt, Steven

2014-01-01

It is hypothesized microphysical predictions have greater uncertainties/errors when there are complex interactions that result from mixed phased processes like riming. Use Global Precipitation Measurement (GPM) Mission ground validation studies in Ontario, Canada to verify and improve parameterizations. The WRF realistically simulated the warm frontal snowband at relatively short lead times (1014 h). The snowband structire is sensitive to the microphysical parameterization used in WRF. The Goddard and SBUYLin most realistically predicted the band structure, but overpredicted snow content. The double moment Morrison scheme best produced the slope of the snow distribution, but it underpredicted the intercept. All schemes and the radar derived (which used dry snow ZR) underpredicted the surface precipitation amount, likely because there was more cloud water than expected. The Morrison had the most cloud water and the best precipitation prediction of all schemes.

Construction of hexahedral finite element mesh capturing realistic geometries of a petroleum reserve

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

Park, Byoung Yoon; Roberts, Barry L.; Sobolik, Steven R.

The three-dimensional finite element mesh capturing realistic geometries of the Bayou Choctaw site has been constructed using the sonar and seismic survey data obtained from the field. The mesh consists of hexahedral elements because the salt constitutive model is coded using hexahedral elements. Various ideas and techniques to construct finite element mesh capturing artificially and naturally formed geometries are provided. The techniques to reduce the number of elements as much as possible to save on computer run time while maintaining the computational accuracy is also introduced. The steps and methodologies could be applied to construct the meshes of Big Hill,more » Bryan Mound, and West Hackberry strategic petroleum reserve sites. The methodology could be applied to the complicated shape masses for various civil and geological structures.« less

Modeling Diurnal and Seasonal 3D Light Profiles in Amazon Forests

NASA Astrophysics Data System (ADS)

Morton, D. C.; Rubio, J.; Gastellu-Etchegorry, J.; Cook, B. D.; Hunter, M. O.; Yin, T.; Nagol, J. R.; Keller, M. M.

2013-12-01

The complex horizontal and vertical structure in tropical forests generates a diversity of light environments for canopy and understory trees. These 3D light profiles are dynamic on diurnal and seasonal time scales based on changes in solar illumination and the fraction of diffuse light. Understanding this variability is critical for improving ecosystem models and interpreting optical and LiDAR remote sensing data from tropical forests. Here, we initialized the Discrete Anisotropic Radiative Transfer (DART) model using dense airborne LiDAR data (>20 returns m2) from three forest sites in the central and eastern Amazon. Forest scenes derived from airborne LiDAR data were tested using modeled and observed large-footprint LiDAR data from the ICESat-GLAS sensor. Next, diurnal and seasonal profiles of photosynthetically active radiation (PAR) for each forest site were simulated under clear sky and cloudy conditions using DART. Incident PAR was summarized for canopy, understory, and ground levels. Our study illustrates the importance of realistic canopy models for accurate representation of LiDAR and optical radiative transfer. In particular, canopy rugosity and ground topography information from airborne LiDAR data provided critical 3D information that cannot be recreated using stem maps and allometric relationships for crown dimensions. The spatial arrangement of canopy trees altered PAR availability, even for dominant individuals, compared to downwelling measurements from nearby eddy flux towers. Pseudo-realistic branch and leaf architecture was also essential for recreating multiple scattering within canopies at near-infrared wavelengths commonly used for LiDAR remote sensing and quantifying PAR attenuation from shading within and between canopies. These findings point to the need for more spatial information on forest structure to improve the representation of light availability in models of tropical forest productivity.

The plume head-continental lithosphere interaction using a tectonically realistic formulation for the lithosphere

NASA Astrophysics Data System (ADS)

Burov, E.; Guillou-Frottier, L.

2005-05-01

Current debates on the existence of mantle plumes largely originate from interpretations of supposed signatures of plume-induced surface topography that are compared with predictions of geodynamic models of plume-lithosphere interactions. These models often inaccurately predict surface evolution: in general, they assume a fixed upper surface and consider the lithosphere as a single viscous layer. In nature, the surface evolution is affected by the elastic-brittle-ductile deformation, by a free upper surface and by the layered structure of the lithosphere. We make a step towards reconciling mantle- and tectonic-scale studies by introducing a tectonically realistic continental plate model in large-scale plume-lithosphere interaction. This model includes (i) a natural free surface boundary condition, (ii) an explicit elastic-viscous(ductile)-plastic(brittle) rheology and (iii) a stratified structure of continental lithosphere. The numerical experiments demonstrate a number of important differences from predictions of conventional models. In particular, this relates to plate bending, mechanical decoupling of crustal and mantle layers and tension-compression instabilities, which produce transient topographic signatures such as uplift and subsidence at large (>500 km) and small scale (300-400, 200-300 and 50-100 km). The mantle plumes do not necessarily produce detectable large-scale topographic highs but often generate only alternating small-scale surface features that could otherwise be attributed to regional tectonics. A single large-wavelength deformation, predicted by conventional models, develops only for a very cold and thick lithosphere. Distinct topographic wavelengths or temporarily spaced events observed in the East African rift system, as well as over French Massif Central, can be explained by a single plume impinging at the base of the continental lithosphere, without evoking complex asthenospheric upwelling.

Comparison of different bioheat transfer models for assessment of burns injuries

NASA Astrophysics Data System (ADS)

Łapka, Piotr; Furmański, Piotr; Wiśniewski, Tomasz S.

2016-12-01

Two bioheat transfer models i.e.: the classical Pennes model and a more realistic two-equation model which accounted for blood vessel structure in the skin as well as heat transfer in the tissue and arteria blood were coupled with heat and mass transfer model in the protective multilayer garment. The clothing model included conductive-radiative heat transfer with water vapor diffusion in pores and air gaps as well as sorption and desorption of water in fibers. Thermal radiation was modeled rigorously e.g.: both the tissue and fabrics were assumed non-gray, absorbing, emitting and anisotropically scattering. Additionally different refractive indices of fabrics, air and tissue and resulting optical phenomena at separating interfaces were accounted for. Both bioheat models were applied for predicting skin temperature distributions and possibility of burns for different exposition times and radiative heat fluxes incident on external surface of the protective garment. Performed analyses revealed that heat transfer in the skin subjected to high heat flux is independent of the blood vessel structure.

Meridionally propagating interannual-to-interdecadal variability in a linear ocean-atmosphere model

NASA Technical Reports Server (NTRS)

Mehta, Vikram M.

1992-01-01

Meridional oscillation modes in a global, primitive-equation coupled ocean-atmosphere model have been analyzed in order to determine whether they contain such meridionally propagating modes as surface-pressure perturbations with years-to-decades oscillation periods. A two-layer global ocean model and a two-level global atmosphere model were then formulated. For realistic parameter values and basic states, meridional modes oscillating at periods of several years to several decades are noted to be present in the coupled ocean-atmosphere model; the oscillation periods, travel times, and meridional structures of surface pressure perturbations in one of the modes are found to be comparable to the corresponding characteristics of observed sea-level pressure perturbations.

Development of mapped stress-field boundary conditions based on a Hill-type muscle model.

PubMed

Cardiff, P; Karač, A; FitzPatrick, D; Flavin, R; Ivanković, A

2014-09-01

Forces generated in the muscles and tendons actuate the movement of the skeleton. Accurate estimation and application of these musculotendon forces in a continuum model is not a trivial matter. Frequently, musculotendon attachments are approximated as point forces; however, accurate estimation of local mechanics requires a more realistic application of musculotendon forces. This paper describes the development of mapped Hill-type muscle models as boundary conditions for a finite volume model of the hip joint, where the calculated muscle fibres map continuously between attachment sites. The applied muscle forces are calculated using active Hill-type models, where input electromyography signals are determined from gait analysis. Realistic muscle attachment sites are determined directly from tomography images. The mapped muscle boundary conditions, implemented in a finite volume structural OpenFOAM (ESI-OpenCFD, Bracknell, UK) solver, are employed to simulate the mid-stance phase of gait using a patient-specific natural hip joint, and a comparison is performed with the standard point load muscle approach. It is concluded that physiological joint loading is not accurately represented by simplistic muscle point loading conditions; however, when contact pressures are of sole interest, simplifying assumptions with regard to muscular forces may be valid. Copyright © 2014 John Wiley & Sons, Ltd.

Simulation of vehicle acoustics in support of netted sensor research and development

NASA Astrophysics Data System (ADS)

Christou, Carol T.; Jacyna, Garry M.

2005-05-01

The MITRE Corporation has initiated a three-year internally-funded research program in netted sensors, the first-year effort focusing on vehicle detection for border monitoring. An important component is developing an understanding of the complex acoustic structure of vehicle noise to aid in netted sensor-based detection and classification. This presentation will discuss the design of a high-fidelity vehicle acoustic simulator to model the generation and transmission of acoustic energy from a moving vehicle to a collection of sensor nodes. Realistic spatially-dependent automobile sounds are generated from models of the engine cylinder firing rates, muffler and manifold resonances, and speed-dependent tire whine noise. Tire noise is the dominant noise source for vehicle speeds in excess of 30 miles per hour (MPH). As a result, we have developed detailed models that successfully predict the tire noise spectrum as a function of speed, road surface wave-number spectrum, tire geometry, and tire tread pattern. We have also included realistic descriptions of the spatial directivity patterns for the engine harmonics, muffler, and tire whine noise components. The acoustic waveforms are propagated to each sensor node using a simple phase-dispersive multi-path model. A brief description of the models and their corresponding outputs is provided.

[3D modeling of the female pelvis by Computer-Assisted Anatomical Dissection: Applications and perspectives].

PubMed

Balaya, V; Uhl, J-F; Lanore, A; Salachas, C; Samoyeau, T; Ngo, C; Bensaid, C; Cornou, C; Rossi, L; Douard, R; Bats, A-S; Lecuru, F; Delmas, V

2016-05-01

To achieve a 3D vectorial model of a female pelvis by Computer-Assisted Anatomical Dissection and to assess educationnal and surgical applications. From the database of "visible female" of Visible Human Project(®) (VHP) of the "national library of medicine" NLM (United States), we used 739 transverse anatomical slices of 0.33mm thickness going from L4 to the trochanters. The manual segmentation of each anatomical structures was done with Winsurf(®) software version 4.3. Each anatomical element was built as a separate vectorial object. The whole colored-rendered vectorial model with realistic textures was exported in 3Dpdf format to allow a real time interactive manipulation with Acrobat(®) pro version 11 software. Each element can be handled separately at any transparency, which allows an anatomical learning by systems: skeleton, pelvic organs, urogenital system, arterial and venous vascularization. This 3D anatomical model can be used as data bank to teach of the fundamental anatomy. This 3D vectorial model, realistic and interactive constitutes an efficient educational tool for the teaching of the anatomy of the pelvis. 3D printing of the pelvis is possible with the new printers. Copyright © 2016 Elsevier Masson SAS. All rights reserved.

Challenges in structural approaches to cell modeling.

PubMed

Im, Wonpil; Liang, Jie; Olson, Arthur; Zhou, Huan-Xiang; Vajda, Sandor; Vakser, Ilya A

2016-07-31

Computational modeling is essential for structural characterization of biomolecular mechanisms across the broad spectrum of scales. Adequate understanding of biomolecular mechanisms inherently involves our ability to model them. Structural modeling of individual biomolecules and their interactions has been rapidly progressing. However, in terms of the broader picture, the focus is shifting toward larger systems, up to the level of a cell. Such modeling involves a more dynamic and realistic representation of the interactomes in vivo, in a crowded cellular environment, as well as membranes and membrane proteins, and other cellular components. Structural modeling of a cell complements computational approaches to cellular mechanisms based on differential equations, graph models, and other techniques to model biological networks, imaging data, etc. Structural modeling along with other computational and experimental approaches will provide a fundamental understanding of life at the molecular level and lead to important applications to biology and medicine. A cross section of diverse approaches presented in this review illustrates the developing shift from the structural modeling of individual molecules to that of cell biology. Studies in several related areas are covered: biological networks; automated construction of three-dimensional cell models using experimental data; modeling of protein complexes; prediction of non-specific and transient protein interactions; thermodynamic and kinetic effects of crowding; cellular membrane modeling; and modeling of chromosomes. The review presents an expert opinion on the current state-of-the-art in these various aspects of structural modeling in cellular biology, and the prospects of future developments in this emerging field. Copyright © 2016 Elsevier Ltd. All rights reserved.

Microphysical variability of Amazonian deep convective cores observed by CloudSat and simulated by a multi-scale modeling framework

NASA Astrophysics Data System (ADS)

Brant Dodson, J.; Taylor, Patrick C.; Branson, Mark

2018-05-01

Recently launched cloud observing satellites provide information about the vertical structure of deep convection and its microphysical characteristics. In this study, CloudSat reflectivity data is stratified by cloud type, and the contoured frequency by altitude diagrams reveal a double-arc structure in deep convective cores (DCCs) above 8 km. This suggests two distinct hydrometeor modes (snow versus hail/graupel) controlling variability in reflectivity profiles. The day-night contrast in the double arcs is about four times larger than the wet-dry season contrast. Using QuickBeam, the vertical reflectivity structure of DCCs is analyzed in two versions of the Superparameterized Community Atmospheric Model (SP-CAM) with single-moment (no graupel) and double-moment (with graupel) microphysics. Double-moment microphysics shows better agreement with observed reflectivity profiles; however, neither model variant captures the double-arc structure. Ultimately, the results show that simulating realistic DCC vertical structure and its variability requires accurate representation of ice microphysics, in particular the hail/graupel modes, though this alone is insufficient.

Structural tailoring of advanced turboprops

NASA Technical Reports Server (NTRS)

Brown, K. W.; Hopkins, Dale A.

1988-01-01

The Structural Tailoring of Advanced Turboprops (STAT) computer program was developed to perform numerical optimization on highly swept propfan blades. The optimization procedure seeks to minimize an objective function defined as either: (1) direct operating cost of full scale blade or, (2) aeroelastic differences between a blade and its scaled model, by tuning internal and external geometry variables that must satisfy realistic blade design constraints. The STAT analysis system includes an aerodynamic efficiency evaluation, a finite element stress and vibration analysis, an acoustic analysis, a flutter analysis, and a once-per-revolution forced response life prediction capability. STAT includes all relevant propfan design constraints.

Numerical models of jet disruption in cluster cooling flows

NASA Technical Reports Server (NTRS)

Loken, Chris; Burns, Jack O.; Roettiger, Kurt; Norman, Mike

1993-01-01

We present a coherent picture for the formation of the observed diverse radio morphological structures in dominant cluster galaxies based on the jet Mach number. Realistic, supersonic, steady-state cooling flow atmospheres are evolved numerically and then used as the ambient medium through which jets of various properties are propagated. Low Mach number jets effectively stagnate due to the ram pressure of the cooling flow atmosphere while medium Mach number jets become unstable and disrupt in the cooling flow to form amorphous structures. High Mach number jets manage to avoid disruption and are able to propagate through the cooling flow.

Structural Tailoring of Advanced Turboprops (STAT)

NASA Technical Reports Server (NTRS)

Brown, Kenneth W.

1988-01-01

This interim report describes the progress achieved in the structural Tailoring of Advanced Turboprops (STAT) program which was developed to perform numerical optimizations on highly swept propfan blades. The optimization procedure seeks to minimize an objective function, defined as either direct operating cost or aeroelastic differences between a blade and its scaled model, by tuning internal and external geometry variables that must satisfy realistic blade design constraints. This report provides a detailed description of the input, optimization procedures, approximate analyses and refined analyses, as well as validation test cases for the STAT program. In addition, conclusions and recommendations are summarized.

DYNA3D: A computer code for crashworthiness engineering

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

Hallquist, J.O.; Benson, D.J.

1986-09-01

A finite element program with crashworthiness applications has been developed at LLNL. DYNA3D, an explicit, fully vectorized, finite deformation structural dynamics program, has four capabilities that are critical for the efficient and realistic modeling crash phenomena: (1) fully optimized nonlinear solid, shell, and beam elements for representing a structure; (2) a broad range of constitutive models for simulating material behavior; (3) sophisticated contact algorithms for impact interactions; (4) a rigid body capability to represent the bodies away from the impact region at a greatly reduced cost without sacrificing accuracy in the momentum calculations. Basic methodologies of the program are brieflymore » presented along with several crashworthiness calculations. Efficiencies of the Hughes-Liu and Belytschko-Tsay shell formulations are considered.« less

A novel approach for introducing cloud spatial structure into cloud radiative transfer parameterizations

NASA Astrophysics Data System (ADS)

Huang, Dong; Liu, Yangang

2014-12-01

Subgrid-scale variability is one of the main reasons why parameterizations are needed in large-scale models. Although some parameterizations started to address the issue of subgrid variability by introducing a subgrid probability distribution function for relevant quantities, the spatial structure has been typically ignored and thus the subgrid-scale interactions cannot be accounted for physically. Here we present a new statistical-physics-like approach whereby the spatial autocorrelation function can be used to physically capture the net effects of subgrid cloud interaction with radiation. The new approach is able to faithfully reproduce the Monte Carlo 3D simulation results with several orders less computational cost, allowing for more realistic representation of cloud radiation interactions in large-scale models.

Global Magnetohydrodynamic Modeling of the Solar Corona

NASA Technical Reports Server (NTRS)

Linker, Jon A.; Wagner, William (Technical Monitor)

2001-01-01

The solar corona, the hot, tenuous outer atmosphere of the Sun, exhibits many fascinating phenomena on a wide range of scales. One of the ways that the Sun can affect us here at Earth is through the large-scale structure of the corona and the dynamical phenomena associated with it, as it is the corona that extends outward as the solar wind and encounters the Earth's magnetosphere. The goal of our research sponsored by NASA's Supporting Research and Technology Program in Solar Physics is to develop increasingly realistic models of the large-scale solar corona, so that we can understand the underlying properties of the coronal magnetic field that lead to the observed structure and evolution of the corona. We describe the work performed under this contract.

Spline Laplacian estimate of EEG potentials over a realistic magnetic resonance-constructed scalp surface model.

PubMed

Babiloni, F; Babiloni, C; Carducci, F; Fattorini, L; Onorati, P; Urbano, A

1996-04-01

This paper presents a realistic Laplacian (RL) estimator based on a tensorial formulation of the surface Laplacian (SL) that uses the 2-D thin plate spline function to obtain a mathematical description of a realistic scalp surface. Because of this tensorial formulation, the RL does not need an orthogonal reference frame placed on the realistic scalp surface. In simulation experiments the RL was estimated with an increasing number of "electrodes" (up to 256) on a mathematical scalp model, the analytic Laplacian being used as a reference. Second and third order spherical spline Laplacian estimates were examined for comparison. Noise of increasing magnitude and spatial frequency was added to the simulated potential distributions. Movement-related potentials and somatosensory evoked potentials sampled with 128 electrodes were used to estimate the RL on a realistically shaped, MR-constructed model of the subject's scalp surface. The RL was also estimated on a mathematical spherical scalp model computed from the real scalp surface. Simulation experiments showed that the performances of the RL estimator were similar to those of the second and third order spherical spline Laplacians. Furthermore, the information content of scalp-recorded potentials was clearly better when the RL estimator computed the SL of the potential on an MR-constructed scalp surface model.

Training in Methods in Computational Neuroscience

DTIC Science & Technology

1992-08-29

in Tritonia. Roger Traub Models with realistic neurons , with an emphasis on large-scale modeling of epileptic phenomena in hippocampus. Rodolpho...Cell Model Plan: 1) Convert some of my simulations from NEURON to GENESIS (and thus learn GENESIS). 2) Develop a realistic inhibtory model . 3) Further...General Hospital, MA Course Project: Membrane Properties of a Neostriatal Neuron and Dopamine Modulation The purpose of my project was to model the

Theoretical Study of Diamond-Like Carbons and Nucleation of Diamond

NASA Astrophysics Data System (ADS)

Lee, Choon-Heung

Different forms of amorphous carbon and hydrocarbons with varying elastic and optical properties, hardness, density and hydrogen content exist depending on the preparation technique. The structure can vary from graphitic to diamond -like, i.e., from mainly threefold coordinated to mainly four-fold coordinated. In order to study the properties of such materials, microscopic models must be developed. These studies include the modelling of crosslinked defective graphite, diamond nucleation along the graphite edges, and diamond-like carbons. Tamor's proposed structure for diamondlike carbon consists of crosslinked graphitic regions. We studied a concrete realization of this model in which the cross -links are produced by shortening the interplanar bond lengths. The model study was accomplished with a pure rhombohedral graphite cell. For this study we used a semi-empirical potential based on Tersoff's environment-dependent potential which contains angular terms. It is enhanced by a long-range potential which describes the interplanar interactions. We found a configuration corresponding to a local minimum. More general features such as the randomness of the distribution of cross-links are needed for a realistic model. A model study of diamond/graphite interfaces was motivated by recent observations by Li and Angus. They observed a significant enhancement of diamond nucleation on the graphite edge planes with the preferential orientation relationship: {0001} _{g} | {111 }_{d}, < 1120 >_{g} | < 101>_{d}. Two possible interface structures were studied using the Tersoff potential. We found that the models have comparable low interface energies even if they contain some dangling bonds. Moreover, lower interface energies were found when the dangling bonds of the non-bonded diamond layer were satisfied with hydrogen. We have proposed a growth mechanism based on this study. Finally, we constructed realistic models of dense amorphous carbon. The WWW (introduced earlier for a-Si by Wooten, Winer and Weaire) model was the starting structure. The effects of clustering of the threefold coordinated atoms in pairs, chains, or graphitic (planar hexagonal clusters) were studied. The resulting models were relaxed using the Tersoff potential. Their electronic structures were studied using an empirical tight-binding scheme with parameters adjusted to reproduce the diamond and graphite band-structures. The models were found to have densities of ~ 3 g/cm^3 and bulk moduli of ~3.1 Mbar. Localized dangling bonds and pi - pi^* states were found within the wide gap of the WWW model consistent with optical gaps of the order of 0.5-2 eV. Hydrogen atoms were introduced to remove some of the dangling bonds. The models were found to account for the essential features of ion-beam deposited amorphous carbon and hydrogenated amorphous carbon.

Order Matters: Sequencing Scale-Realistic versus Simplified Models to Improve Science Learning

ERIC Educational Resources Information Center

Chen, Chen; Schneps, Matthew H.; Sonnert, Gerhard

2016-01-01

Teachers choosing between different models to facilitate students' understanding of an abstract system must decide whether to adopt a model that is simplified and striking or one that is realistic and complex. Only recently have instructional technologies enabled teachers and learners to change presentations swiftly and to provide for learning…

How High Is the Tramping Track? Mathematising and Applying in a Calculus Model-Eliciting Activity

ERIC Educational Resources Information Center

Yoon, Caroline; Dreyfus, Tommy; Thomas, Michael O. J.

2010-01-01

Two complementary processes involved in mathematical modelling are mathematising a realistic situation and applying a mathematical technique to a given realistic situation. We present and analyse work from two undergraduate students and two secondary school teachers who engaged in both processes during a mathematical modelling task that required…

Environmental barriers and enablers to physical activity participation among rural adults: a qualitative study.

PubMed

Cleland, Verity; Hughes, Clarissa; Thornton, Lukar; Squibb, Kathryn; Venn, Alison; Ball, Kylie

2015-08-01

Social-ecological models of health behaviour acknowledge environmental influences, but research examining how the environment shapes physical activity in rural settings is limited. This study aimed to explore the environmental factors that act as barriers or facilitators to physical activity participation among rural adults. Forty-nine adults from three regions of rural Tasmania, Australia, participated in semi-structured interviews that explored features of the environment that supported or hindered physical activity. Interviews were digitally recorded, transcribed verbatim and analysed thematically. Four key themes emerged: functionality, diversity, spaces and places for all and realistic expectations. 'Functionality' included connectivity with other destinations, distance, safety, continuity, supporting infrastructure and surfacing. While there was limited 'diversity' of structured activities and recreational facilities, the importance of easy and convenient access to a natural environment that accommodated physical activity was highlighted. 'Spaces and places for all' highlighted the importance of shared-use areas, particularly those that were family- and dog-friendly. Despite desires for more physical activity opportunities, many participants had 'realistic expectations' of what was feasible in rural settings. Functionality, diversity, spaces and places for all and realistic expectations were identified as considerations important for physical activity among rural adults. Further research using quantitative approaches in larger samples is needed to confirm these findings. SO WHAT? Urban-centric views of environmental influences on physical activity are unlikely to be entirely appropriate for rural areas. Evidence-based recommendations are provided for creating new or modifying existing infrastructure to support active living in rural settings.

Measurement and Modeling of High Energy Laser (HEL)-Droplet Interactions

DTIC Science & Technology

2016-05-11

and a water droplet. Based upon these results, both offensive and defensive systems can be developed for distinct military applications. Analysis of...closer to being a realistic shipboard asset, so does the reality of other countries possessing equal capabilities. The Chinese military has recently...structural damage to many targets [2]. Although far from the stage of being able to penetrate the skin of a maritime military vessel, this weapon is the

Towards a realistic population of simulated galaxy groups and clusters

NASA Astrophysics Data System (ADS)

Le Brun, Amandine M. C.; McCarthy, Ian G.; Schaye, Joop; Ponman, Trevor J.

2014-06-01

We present a new suite of large-volume cosmological hydrodynamical simulations called cosmo-OWLS. They form an extension to the OverWhelmingly Large Simulations (OWLS) project, and have been designed to help improve our understanding of cluster astrophysics and non-linear structure formation, which are now the limiting systematic errors when using clusters as cosmological probes. Starting from identical initial conditions in either the Planck or WMAP7 cosmologies, we systematically vary the most important `sub-grid' physics, including feedback from supernovae and active galactic nuclei (AGN). We compare the properties of the simulated galaxy groups and clusters to a wide range of observational data, such as X-ray luminosity and temperature, gas mass fractions, entropy and density profiles, Sunyaev-Zel'dovich flux, I-band mass-to-light ratio, dominance of the brightest cluster galaxy and central massive black hole (BH) masses, by producing synthetic observations and mimicking observational analysis techniques. These comparisons demonstrate that some AGN feedback models can produce a realistic population of galaxy groups and clusters, broadly reproducing both the median trend and, for the first time, the scatter in physical properties over approximately two decades in mass (1013 M⊙ ≲ M500 ≲ 1015 M⊙) and 1.5 decades in radius (0.05 ≲ r/r500 ≲ 1.5). However, in other models, the AGN feedback is too violent (even though they reproduce the observed BH scaling relations), implying that calibration of the models is required. The production of realistic populations of simulated groups and clusters, as well as models that bracket the observations, opens the door to the creation of synthetic surveys for assisting the astrophysical and cosmological interpretation of cluster surveys, as well as quantifying the impact of selection effects.

The difference between energy consumption and energy cost: Modelling energy tariff structures for water resource recovery facilities.

PubMed

Aymerich, I; Rieger, L; Sobhani, R; Rosso, D; Corominas, Ll

2015-09-15

The objective of this paper is to demonstrate the importance of incorporating more realistic energy cost models (based on current energy tariff structures) into existing water resource recovery facilities (WRRFs) process models when evaluating technologies and cost-saving control strategies. In this paper, we first introduce a systematic framework to model energy usage at WRRFs and a generalized structure to describe energy tariffs including the most common billing terms. Secondly, this paper introduces a detailed energy cost model based on a Spanish energy tariff structure coupled with a WRRF process model to evaluate several control strategies and provide insights into the selection of the contracted power structure. The results for a 1-year evaluation on a 115,000 population-equivalent WRRF showed monthly cost differences ranging from 7 to 30% when comparing the detailed energy cost model to an average energy price. The evaluation of different aeration control strategies also showed that using average energy prices and neglecting energy tariff structures may lead to biased conclusions when selecting operating strategies or comparing technologies or equipment. The proposed framework demonstrated that for cost minimization, control strategies should be paired with a specific optimal contracted power. Hence, the design of operational and control strategies must take into account the local energy tariff. Copyright © 2015 Elsevier Ltd. All rights reserved.

Active damage interrogation system for structural health monitoring

NASA Astrophysics Data System (ADS)

Lichtenwalner, Peter F.; Dunne, James P.; Becker, Ronald S.; Baumann, Erwin W.

1997-05-01

An integrated and automated smart structures approach for in situ damage assessment has been implemented and evaluated in a laboratory environment for health monitoring of a realistic aerospace structural component. This approach, called Active Damage Interrogation (ADI), utilizes an array of piezoelectric transducers attached to or embedded within the structure for both actuation and sensing. The ADI system, which is model independent, actively interrogates the structure through broadband excitation of multiple actuators across the desired frequency range. Statistical analysis of the changes in transfer functions between actuator/sensor pairs is used to detect, localize, and assess the severity of damage in the structure. This paper presents the overall concept of the ADI system and provides experimental results of damage assessment studies conducted for a composite structural component of the MD-900 Explorer helicopter rotor system. The potential advantages of this approach include simplicity (no need for a model), sensitivity, and low cost implementation. The results obtained thus far indicate considerably promise for integrated structural health monitoring of aerospace vehicles, leading to the practice of condition-based maintenance and consequent reduction in life cycle costs.

SU-F-BRF-01: A GPU Framework for Developing Interactive High-Resolution Patient-Specific Biomechanical Models

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

Neylon, J; Qi, S; Sheng, K

2014-06-15

Purpose: To develop a GPU-based framework that can generate highresolution and patient-specific biomechanical models from a given simulation CT and contoured structures, optimized to run at interactive speeds, for addressing adaptive radiotherapy objectives. Method: A Massspring-damping (MSD) model was generated from a given simulation CT. The model's mass elements were generated for every voxel of anatomy, and positioned in a deformation space in the GPU memory. MSD connections were established between neighboring mass elements in a dense distribution. Contoured internal structures allowed control over elastic material properties of different tissues. Once the model was initialized in GPU memory, skeletal anatomymore » was actuated using rigid-body transformations, while soft tissues were governed by elastic corrective forces and constraints, which included tensile forces, shear forces, and spring damping forces. The model was validated by applying a known load to a soft tissue block and comparing the observed deformation to ground truth calculations from established elastic mechanics. Results: Our analyses showed that both local and global load experiments yielded results with a correlation coefficient R{sup 2} > 0.98 compared to ground truth. Models were generated for several anatomical regions. Head and neck models accurately simulated posture changes by rotating the skeletal anatomy in three dimensions. Pelvic models were developed for realistic deformations for changes in bladder volume. Thoracic models demonstrated breast deformation due to gravity when changing treatment position from supine to prone. The GPU framework performed at greater than 30 iterations per second for over 1 million mass elements with up to 26 MSD connections each. Conclusions: Realistic simulations of site-specific, complex posture and physiological changes were simulated at interactive speeds using patient data. Incorporating such a model with live patient tracking would facilitate real time assessment of variations of the actual anatomy and delivered dose for adaptive intervention and re-planning.« less

Passive Earth Entry Vehicle Landing Test

NASA Technical Reports Server (NTRS)

Kellas, Sotiris

2017-01-01

Two full-scale passive Earth Entry Vehicles (EEV) with realistic structure, surrogate sample container, and surrogate Thermal Protection System (TPS) were built at NASA Langley Research Center (LaRC) and tested at the Utah Test and Training Range (UTTR). The main test objective was to demonstrate structural integrity and investigate possible impact response deviations of the realistic vehicle as compared to rigid penetrometer responses. With the exception of the surrogate TPS and minor structural differences in the back shell construction, the two test vehicles were identical in geometry and both utilized the Integrated Composite Stiffener Structure (ICoSS) structural concept in the forward shell. The ICoSS concept is a lightweight and highly adaptable composite concept developed at NASA LaRC specifically for entry vehicle TPS carrier structures. The instrumented test vehicles were released from a helicopter approximately 400 m above ground. The drop height was selected such that at least 98% of the vehicles terminal velocity would be achieved. While drop tests of spherical penetrometers and a low fidelity aerodynamic EEV model were conducted at UTTR in 1998 and 2000, this was the first time a passive EEV with flight-like structure, surrogate TPS, and sample container was tested at UTTR for the purpose of complete structural system validation. Test results showed that at a landing vertical speed of approximately 30 m/s, the test vehicle maintained structural integrity and enough rigidity to penetrate the sandy clay surface thus attenuating the landing load, as measured at the vehicle CG, to less than 600 g. This measured deceleration was found to be in family with rigid penetrometer test data from the 1998 and 2000 test campaigns. Design implications of vehicle structure/soil interaction with respect to sample container and sample survivability are briefly discussed.

An accurate nonlinear finite element analysis and test correlation of a stiffened composite wing panel

NASA Astrophysics Data System (ADS)

Davis, D. D., Jr.; Krishnamurthy, T.; Stroud, W. J.; McCleary, S. L.

1991-05-01

State-of-the-art nonlinear finite element analysis techniques are evaluated by applying them to a realistic aircraft structural component. A wing panel from the V-22 tiltrotor aircraft is chosen because it is a typical modern aircraft structural component for which there is experimental data for comparison of results. From blueprints and drawings, a very detailed finite element model containing 2284 9-node Assumed Natural-Coordinate Strain elements was generated. A novel solution strategy which accounts for geometric nonlinearity through the use of corotating element reference frames and nonlinear strain-displacement relations is used to analyze this detailed model. Results from linear analyses using the same finite element model are presented in order to illustrate the advantages and costs of the nonlinear analysis as compared with the more traditional linear analysis.

An accurate nonlinear finite element analysis and test correlation of a stiffened composite wing panel

NASA Technical Reports Server (NTRS)

Davis, D. D., Jr.; Krishnamurthy, T.; Stroud, W. J.; Mccleary, S. L.

1991-01-01

State-of-the-art nonlinear finite element analysis techniques are evaluated by applying them to a realistic aircraft structural component. A wing panel from the V-22 tiltrotor aircraft is chosen because it is a typical modern aircraft structural component for which there is experimental data for comparison of results. From blueprints and drawings, a very detailed finite element model containing 2284 9-node Assumed Natural-Coordinate Strain elements was generated. A novel solution strategy which accounts for geometric nonlinearity through the use of corotating element reference frames and nonlinear strain-displacement relations is used to analyze this detailed model. Results from linear analyses using the same finite element model are presented in order to illustrate the advantages and costs of the nonlinear analysis as compared with the more traditional linear analysis.

Development of a Probabilistic Dynamic Synthesis Method for the Analysis of Nondeterministic Structures

NASA Technical Reports Server (NTRS)

Brown, A. M.

1998-01-01

Accounting for the statistical geometric and material variability of structures in analysis has been a topic of considerable research for the last 30 years. The determination of quantifiable measures of statistical probability of a desired response variable, such as natural frequency, maximum displacement, or stress, to replace experience-based "safety factors" has been a primary goal of these studies. There are, however, several problems associated with their satisfactory application to realistic structures, such as bladed disks in turbomachinery. These include the accurate definition of the input random variables (rv's), the large size of the finite element models frequently used to simulate these structures, which makes even a single deterministic analysis expensive, and accurate generation of the cumulative distribution function (CDF) necessary to obtain the probability of the desired response variables. The research presented here applies a methodology called probabilistic dynamic synthesis (PDS) to solve these problems. The PDS method uses dynamic characteristics of substructures measured from modal test as the input rv's, rather than "primitive" rv's such as material or geometric uncertainties. These dynamic characteristics, which are the free-free eigenvalues, eigenvectors, and residual flexibility (RF), are readily measured and for many substructures, a reasonable sample set of these measurements can be obtained. The statistics for these rv's accurately account for the entire random character of the substructure. Using the RF method of component mode synthesis, these dynamic characteristics are used to generate reduced-size sample models of the substructures, which are then coupled to form system models. These sample models are used to obtain the CDF of the response variable by either applying Monte Carlo simulation or by generating data points for use in the response surface reliability method, which can perform the probabilistic analysis with an order of magnitude less computational effort. Both free- and forced-response analyses have been performed, and the results indicate that, while there is considerable room for improvement, the method produces usable and more representative solutions for the design of realistic structures with a substantial savings in computer time.

Present Day Biology seen in the Looking Glass of Physics of Complexity

NASA Astrophysics Data System (ADS)

Schuster, P.

Darwin's theory of variation and selection in its simplest form is directly applicable to RNA evolution in vitro as well as to virus evolution, and it allows for quantitative predictions. Understanding evolution at the molecular level is ultimately related to the central paradigm of structural biology: sequence⇒ structure ⇒ function. We elaborate on the state of the art in modeling and understanding evolution of RNA driven by reproduction and mutation. The focus will be laid on the landscape concept—originally introduced by Sewall Wright—and its application to problems in biology. The relation between genotypes and phenotypes is the result of two consecutive mappings from a space of genotypes called sequence space onto a space of phenotypes or structures, and fitness is the result of a mapping from phenotype space into non-negative real numbers. Realistic landscapes as derived from folding of RNA sequences into structures are characterized by two properties: (i) they are rugged in the sense that sequences lying nearby in sequence space may have very different fitness values and (ii) they are characterized by an appreciable degree of neutrality implying that a certain fraction of genotypes and/or phenotypes cannot be distinguished in the selection process. Evolutionary dynamics on realistic landscapes will be studied as a function of the mutation rate, and the role of neutrality in the selection process will be discussed.

Quasilinear Line Broadened Model for Energetic Particle Transport

NASA Astrophysics Data System (ADS)

Ghantous, Katy; Gorelenkov, Nikolai; Berk, Herbert

2011-10-01

We present a self-consistent quasi-linear model that describes wave-particle interaction in toroidal geometry and computes fast ion transport during TAE mode evolution. The model bridges the gap between single mode resonances, where it predicts the analytically expected saturation levels, and the case of multiple modes overlapping, where particles diffuse across phase space. Results are presented in the large aspect ratio limit where analytic expressions are used for Fourier harmonics of the power exchange between waves and particles, . Implemention of a more realistic mode structure calculated by NOVAK code are also presented. This work is funded by DOE contract DE-AC02-09CH11466.

S-velocity structure in Cimandiri fault zone derived from neighbourhood inversion of teleseismic receiver functions

NASA Astrophysics Data System (ADS)

Syuhada; Anggono, T.; Febriani, F.; Ramdhan, M.

2018-03-01

The availability information about realistic velocity earth model in the fault zone is crucial in order to quantify seismic hazard analysis, such as ground motion modelling, determination of earthquake locations and focal mechanism. In this report, we use teleseismic receiver function to invert the S-velocity model beneath a seismic station located in the Cimandiri fault zone using neighbourhood algorithm inversion method. The result suggests the crustal thickness beneath the station is about 32-38 km. Furthermore, low velocity layers with high Vp/Vs exists in the lower crust, which may indicate the presence of hot material ascending from the subducted slab.

Material model for physically based rendering

NASA Astrophysics Data System (ADS)

Robart, Mathieu; Paulin, Mathias; Caubet, Rene

1999-09-01

In computer graphics, a complete knowledge of the interactions between light and a material is essential to obtain photorealistic pictures. Physical measurements allow us to obtain data on the material response, but are limited to industrial surfaces and depend on measure conditions. Analytic models do exist, but they are often inadequate for common use: the empiric ones are too simple to be realistic, and the physically-based ones are often to complex or too specialized to be generally useful. Therefore, we have developed a multiresolution virtual material model, that not only describes the surface of a material, but also its internal structure thanks to distribution functions of microelements, arranged in layers. Each microelement possesses its own response to an incident light, from an elementary reflection to a complex response provided by its inner structure, taking into account geometry, energy, polarization, . . ., of each light ray. This model is virtually illuminated, in order to compute its response to an incident radiance. This directional response is stored in a compressed data structure using spherical wavelets, and is destined to be used in a rendering model such as directional radiosity.

Micro-porous layer stochastic reconstruction and transport parameter determination

NASA Astrophysics Data System (ADS)

El Hannach, Mohamed; Singh, Randhir; Djilali, Ned; Kjeang, Erik

2015-05-01

The Micro-Porous Layer (MPL) is a porous, thin layer commonly used in fuel cells at the interfaces between the catalyst layers and gas diffusion media. It is generally made from spherical carbon nanoparticles and PTFE acting as hydrophobic agent. The scale and brittle nature of the MPL structure makes it challenging to study experimentally. In the present work, a 3D stochastic model is developed to virtually reconstruct the MPL structure. The carbon nanoparticle and PTFE phases are fully distinguished by the algorithm. The model is shown to capture the actual structural morphology of the MPL and is validated by comparing the results to available experimental data. The model shows a good capability in generating a realistic MPL successfully using a set of parameters introduced to capture specific morphological features of the MPL. A numerical model that resolves diffusive transport at the pore scale is used to compute the effective transport properties of the reconstructed MPLs. A parametric study is conducted to illustrate the capability of the model as an MPL design tool that can be used to guide and optimize the functionality of the material.

The influence of computational assumptions on analysing abdominal aortic aneurysm haemodynamics.

PubMed

Ene, Florentina; Delassus, Patrick; Morris, Liam

2014-08-01

The variation in computational assumptions for analysing abdominal aortic aneurysm haemodynamics can influence the desired output results and computational cost. Such assumptions for abdominal aortic aneurysm modelling include static/transient pressures, steady/transient flows and rigid/compliant walls. Six computational methods and these various assumptions were simulated and compared within a realistic abdominal aortic aneurysm model with and without intraluminal thrombus. A full transient fluid-structure interaction was required to analyse the flow patterns within the compliant abdominal aortic aneurysms models. Rigid wall computational fluid dynamics overestimates the velocity magnitude by as much as 40%-65% and the wall shear stress by 30%-50%. These differences were attributed to the deforming walls which reduced the outlet volumetric flow rate for the transient fluid-structure interaction during the majority of the systolic phase. Static finite element analysis accurately approximates the deformations and von Mises stresses when compared with transient fluid-structure interaction. Simplifying the modelling complexity reduces the computational cost significantly. In conclusion, the deformation and von Mises stress can be approximately found by static finite element analysis, while for compliant models a full transient fluid-structure interaction analysis is required for acquiring the fluid flow phenomenon. © IMechE 2014.

Cortical Spiking Network Interfaced with Virtual Musculoskeletal Arm and Robotic Arm.

PubMed

Dura-Bernal, Salvador; Zhou, Xianlian; Neymotin, Samuel A; Przekwas, Andrzej; Francis, Joseph T; Lytton, William W

2015-01-01

Embedding computational models in the physical world is a critical step towards constraining their behavior and building practical applications. Here we aim to drive a realistic musculoskeletal arm model using a biomimetic cortical spiking model, and make a robot arm reproduce the same trajectories in real time. Our cortical model consisted of a 3-layered cortex, composed of several hundred spiking model-neurons, which display physiologically realistic dynamics. We interconnected the cortical model to a two-joint musculoskeletal model of a human arm, with realistic anatomical and biomechanical properties. The virtual arm received muscle excitations from the neuronal model, and fed back proprioceptive information, forming a closed-loop system. The cortical model was trained using spike timing-dependent reinforcement learning to drive the virtual arm in a 2D reaching task. Limb position was used to simultaneously control a robot arm using an improved network interface. Virtual arm muscle activations responded to motoneuron firing rates, with virtual arm muscles lengths encoded via population coding in the proprioceptive population. After training, the virtual arm performed reaching movements which were smoother and more realistic than those obtained using a simplistic arm model. This system provided access to both spiking network properties and to arm biophysical properties, including muscle forces. The use of a musculoskeletal virtual arm and the improved control system allowed the robot arm to perform movements which were smoother than those reported in our previous paper using a simplistic arm. This work provides a novel approach consisting of bidirectionally connecting a cortical model to a realistic virtual arm, and using the system output to drive a robotic arm in real time. Our techniques are applicable to the future development of brain neuroprosthetic control systems, and may enable enhanced brain-machine interfaces with the possibility for finer control of limb prosthetics.

Development of a database for the verification of trans-ionospheric remote sensing systems

NASA Astrophysics Data System (ADS)

Leitinger, R.

2005-08-01

Remote sensing systems need verification by means of in-situ data or by means of model data. In the case of ionospheric occultation inversion, ionosphere tomography and other imaging methods on the basis of satellite-to-ground or satellite-to-satellite electron content, the availability of in-situ data with adequate spatial and temporal co-location is a very rare case, indeed. Therefore the method of choice for verification is to produce artificial electron content data with realistic properties, subject these data to the inversion/retrieval method, compare the results with model data and apply a suitable type of “goodness of fit” classification. Inter-comparison of inversion/retrieval methods should be done with sets of artificial electron contents in a “blind” (or even “double blind”) way. The set up of a relevant database for the COST 271 Action is described. One part of the database will be made available to everyone interested in testing of inversion/retrieval methods. The artificial electron content data are calculated by means of large-scale models that are “modulated” in a realistic way to include smaller scale and dynamic structures, like troughs and traveling ionospheric disturbances.

Scenario based seismic hazard assessment and its application to the seismic verification of relevant buildings

NASA Astrophysics Data System (ADS)

Romanelli, Fabio; Vaccari, Franco; Altin, Giorgio; Panza, Giuliano

2016-04-01

The procedure we developed, and applied to a few relevant cases, leads to the seismic verification of a building by: a) use of a scenario based neodeterministic approach (NDSHA) for the calculation of the seismic input, and b) control of the numerical modeling of an existing building, using free vibration measurements of the real structure. The key point of this approach is the strict collaboration, from the seismic input definition to the monitoring of the response of the building in the calculation phase, of the seismologist and the civil engineer. The vibrometry study allows the engineer to adjust the computational model in the direction suggested by the experimental result of a physical measurement. Once the model has been calibrated by vibrometric analysis, one can select in the design spectrum the proper range of periods of interest for the structure. Then, the realistic values of spectral acceleration, which include the appropriate amplification obtained through the modeling of a "scenario" input to be applied to the final model, can be selected. Generally, but not necessarily, the "scenario" spectra lead to higher accelerations than those deduced by taking the spectra from the national codes (i.e. NTC 2008, for Italy). The task of the verifier engineer is to act so that the solution of the verification is conservative and realistic. We show some examples of the application of the procedure to some relevant (e.g. schools) buildings of the Trieste Province. The adoption of the scenario input has given in most of the cases an increase of critical elements that have to be taken into account in the design of reinforcements. However, the higher cost associated with the increase of elements to reinforce is reasonable, especially considering the important reduction of the risk level.

Diagnosis of extratropical variability in seasonal integrations of the ECMWF model

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

Ferranti, L.; Molteni, F.; Brankovic, C.

1994-06-01

Properties of the general circulation simulated by the ECMWF model are discussed using a set of seasonal integrations at T63 resolution. For each season, over the period of 5 years, 1986-1990, three integrations initiated on consecutive days were run with prescribed observed sea surface temperature (SST). This paper presents a series of diagnostics of extratropical variability in the model, with particular emphasis on the northern winter. Time-filtered maps of variability indicate that in this season there is insufficient storm track activity penetrating into the Eurasian continent. Related to this the maximum of lower-frequency variability for northern spring are more realistic.more » Blocking is defined objectively in terms of the geostrophic wind at 500 mb. Consistent with the low-frequency transience, in the Euro-Atlantic sector the position of maximum blocking in the model is displaced eastward. The composite structure of blocks over the Pacific is realistic, though their frequency is severely underestimated at all times of year. Shortcomings in the simulated wintertime general circulation were also revealed by studying the projection of 5-day mean fields onto empirical orthogonal functions (EOFs) of the observed flow. The largest differences were apparent for statistics of EOFs of the zonal mean flow. Analysis of weather regime activity, defined from the EOFs, suggested that regimes with positive PNA index were overpopulated, while the negative PNA regimes were underpopulated. A further comparison between observed and modeled low-frequency variance revealed that underestimation of low-frequency variability occurs along the same axes that explain most of the spatial structure of the error in the mean field, suggesting a common dynamical origin for these two aspects of the systematic error. 17 refs., 17 figs., 4 tabs.« less

Role of atmosphere-ocean interactions in supermodeling the tropical Pacific climate

NASA Astrophysics Data System (ADS)

Shen, Mao-Lin; Keenlyside, Noel; Bhatt, Bhuwan C.; Duane, Gregory S.

2017-12-01

The supermodel strategy interactively combines several models to outperform the individual models comprising it. A key advantage of the approach is that nonlinear improvements can be achieved, in contrast to the linear weighted combination of individual unconnected models. This property is found in a climate supermodel constructed by coupling two versions of an atmospheric model differing only in their convection scheme to a single ocean model. The ocean model receives a weighted combination of the momentum and heat fluxes. Optimal weights can produce a supermodel with a basic state similar to observations: a single Intertropical Convergence zone (ITCZ), with a western Pacific warm pool and an equatorial cold tongue. This is in stark contrast to the erroneous double ITCZ pattern simulated by both of the two stand-alone coupled models. By varying weights, we develop a conceptual scheme to explain how combining the momentum fluxes of the two different atmospheric models affects equatorial upwelling and surface wind feedback so as to give a realistic basic state in the tropical Pacific. In particular, we propose a mechanism based on the competing influences of equatorial zonal wind and off-equatorial wind stress curl in driving equatorial upwelling in the coupled models. Our results show how nonlinear ocean-atmosphere interaction is essential in combining these two effects to build different sea surface temperature structures, some of which are realistic. They also provide some insight into observed and modelled tropical Pacific climate.

Role of atmosphere-ocean interactions in supermodeling the tropical Pacific climate.

PubMed

Shen, Mao-Lin; Keenlyside, Noel; Bhatt, Bhuwan C; Duane, Gregory S

2017-12-01

The supermodel strategy interactively combines several models to outperform the individual models comprising it. A key advantage of the approach is that nonlinear improvements can be achieved, in contrast to the linear weighted combination of individual unconnected models. This property is found in a climate supermodel constructed by coupling two versions of an atmospheric model differing only in their convection scheme to a single ocean model. The ocean model receives a weighted combination of the momentum and heat fluxes. Optimal weights can produce a supermodel with a basic state similar to observations: a single Intertropical Convergence zone (ITCZ), with a western Pacific warm pool and an equatorial cold tongue. This is in stark contrast to the erroneous double ITCZ pattern simulated by both of the two stand-alone coupled models. By varying weights, we develop a conceptual scheme to explain how combining the momentum fluxes of the two different atmospheric models affects equatorial upwelling and surface wind feedback so as to give a realistic basic state in the tropical Pacific. In particular, we propose a mechanism based on the competing influences of equatorial zonal wind and off-equatorial wind stress curl in driving equatorial upwelling in the coupled models. Our results show how nonlinear ocean-atmosphere interaction is essential in combining these two effects to build different sea surface temperature structures, some of which are realistic. They also provide some insight into observed and modelled tropical Pacific climate.

Modelling intelligent behavior

NASA Technical Reports Server (NTRS)

Green, H. S.; Triffet, T.

1993-01-01

An introductory discussion of the related concepts of intelligence and consciousness suggests criteria to be met in the modeling of intelligence and the development of intelligent materials. Methods for the modeling of actual structure and activity of the animal cortex have been found, based on present knowledge of the ionic and cellular constitution of the nervous system. These have led to the development of a realistic neural network model, which has been used to study the formation of memory and the process of learning. An account is given of experiments with simple materials which exhibit almost all properties of biological synapses and suggest the possibility of a new type of computer architecture to implement an advanced type of artificial intelligence.

Coarse-grained, foldable, physical model of the polypeptide chain.

PubMed

Chakraborty, Promita; Zuckermann, Ronald N

2013-08-13

Although nonflexible, scaled molecular models like Pauling-Corey's and its descendants have made significant contributions in structural biology research and pedagogy, recent technical advances in 3D printing and electronics make it possible to go one step further in designing physical models of biomacromolecules: to make them conformationally dynamic. We report here the design, construction, and validation of a flexible, scaled, physical model of the polypeptide chain, which accurately reproduces the bond rotational degrees of freedom in the peptide backbone. The coarse-grained backbone model consists of repeating amide and α-carbon units, connected by mechanical bonds (corresponding to ϕ and ψ) that include realistic barriers to rotation that closely approximate those found at the molecular scale. Longer-range hydrogen-bonding interactions are also incorporated, allowing the chain to readily fold into stable secondary structures. The model is easily constructed with readily obtainable parts and promises to be a tremendous educational aid to the intuitive understanding of chain folding as the basis for macromolecular structure. Furthermore, this physical model can serve as the basis for linking tangible biomacromolecular models directly to the vast array of existing computational tools to provide an enhanced and interactive human-computer interface.

Prospectus: towards the development of high-fidelity models of wall turbulence at large Reynolds number

NASA Astrophysics Data System (ADS)

Klewicki, J. C.; Chini, G. P.; Gibson, J. F.

2017-03-01

Recent and on-going advances in mathematical methods and analysis techniques, coupled with the experimental and computational capacity to capture detailed flow structure at increasingly large Reynolds numbers, afford an unprecedented opportunity to develop realistic models of high Reynolds number turbulent wall-flow dynamics. A distinctive attribute of this new generation of models is their grounding in the Navier-Stokes equations. By adhering to this challenging constraint, high-fidelity models ultimately can be developed that not only predict flow properties at high Reynolds numbers, but that possess a mathematical structure that faithfully captures the underlying flow physics. These first-principles models are needed, for example, to reliably manipulate flow behaviours at extreme Reynolds numbers. This theme issue of Philosophical Transactions of the Royal Society A provides a selection of contributions from the community of researchers who are working towards the development of such models. Broadly speaking, the research topics represented herein report on dynamical structure, mechanisms and transport; scale interactions and self-similarity; model reductions that restrict nonlinear interactions; and modern asymptotic theories. In this prospectus, the challenges associated with modelling turbulent wall-flows at large Reynolds numbers are briefly outlined, and the connections between the contributing papers are highlighted.

Improving fault image by determination of optimum seismic survey parameters using ray-based modeling

NASA Astrophysics Data System (ADS)

Saffarzadeh, Sadegh; Javaherian, Abdolrahim; Hasani, Hossein; Talebi, Mohammad Ali

2018-06-01

In complex structures such as faults, salt domes and reefs, specifying the survey parameters is more challenging and critical owing to the complicated wave field behavior involved in such structures. In the petroleum industry, detecting faults has become crucial for reservoir potential where faults can act as traps for hydrocarbon. In this regard, seismic survey modeling is employed to construct a model close to the real structure, and obtain very realistic synthetic seismic data. Seismic modeling software, the velocity model and parameters pre-determined by conventional methods enable a seismic survey designer to run a shot-by-shot virtual survey operation. A reliable velocity model of structures can be constructed by integrating the 2D seismic data, geological reports and the well information. The effects of various survey designs can be investigated by the analysis of illumination maps and flower plots. Also, seismic processing of the synthetic data output can describe the target image using different survey parameters. Therefore, seismic modeling is one of the most economical ways to establish and test the optimum acquisition parameters to obtain the best image when dealing with complex geological structures. The primary objective of this study is to design a proper 3D seismic survey orientation to achieve fault zone structures through ray-tracing seismic modeling. The results prove that a seismic survey designer can enhance the image of fault planes in a seismic section by utilizing the proposed modeling and processing approach.

Realistic micromechanical modeling and simulation of two-phase heterogeneous materials

NASA Astrophysics Data System (ADS)

Sreeranganathan, Arun

This dissertation research focuses on micromechanical modeling and simulations of two-phase heterogeneous materials exhibiting anisotropic and non-uniform microstructures with long-range spatial correlations. Completed work involves development of methodologies for realistic micromechanical analyses of materials using a combination of stereological techniques, two- and three-dimensional digital image processing, and finite element based modeling tools. The methodologies are developed via its applications to two technologically important material systems, namely, discontinuously reinforced aluminum composites containing silicon carbide particles as reinforcement, and boron modified titanium alloys containing in situ formed titanium boride whiskers. Microstructural attributes such as the shape, size, volume fraction, and spatial distribution of the reinforcement phase in these materials were incorporated in the models without any simplifying assumptions. Instrumented indentation was used to determine the constitutive properties of individual microstructural phases. Micromechanical analyses were performed using realistic 2D and 3D models and the results were compared with experimental data. Results indicated that 2D models fail to capture the deformation behavior of these materials and 3D analyses are required for realistic simulations. The effect of clustering of silicon carbide particles and associated porosity on the mechanical response of discontinuously reinforced aluminum composites was investigated using 3D models. Parametric studies were carried out using computer simulated microstructures incorporating realistic microstructural attributes. The intrinsic merit of this research is the development and integration of the required enabling techniques and methodologies for representation, modeling, and simulations of complex geometry of microstructures in two- and three-dimensional space facilitating better understanding of the effects of microstructural geometry on the mechanical behavior of materials.

Chained Bell Inequality Experiment with High-Efficiency Measurements

NASA Astrophysics Data System (ADS)

Tan, T. R.; Wan, Y.; Erickson, S.; Bierhorst, P.; Kienzler, D.; Glancy, S.; Knill, E.; Leibfried, D.; Wineland, D. J.

2017-03-01

We report correlation measurements on two 9Be+ ions that violate a chained Bell inequality obeyed by any local-realistic theory. The correlations can be modeled as derived from a mixture of a local-realistic probabilistic distribution and a distribution that violates the inequality. A statistical framework is formulated to quantify the local-realistic fraction allowable in the observed distribution without the fair-sampling or independent-and-identical-distributions assumptions. We exclude models of our experiment whose local-realistic fraction is above 0.327 at the 95% confidence level. This bound is significantly lower than 0.586, the minimum fraction derived from a perfect Clauser-Horne-Shimony-Holt inequality experiment. Furthermore, our data provide a device-independent certification of the deterministically created Bell states.

Use of EBSD Data in Numerical Analyses

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

Becker, R; Wiland, H

2000-01-14

Experimentation, theory and modeling have all played vital roles in defining what is known about microstructural evolution and the effects of microstructure on material properties. Recently, technology has become an enabling factor, allowing significant advances to be made on several fronts. Experimental evidence of crystallographic slip and the basic theory of crystal plasticity were established in the early 20th Century, and the theory and models evolved incrementally over the next 60 years. (Asaro provides a comprehensive review of the mechanisms and basic plasticity models.) During this time modeling was primarily concerned with the average response of polycrystalline aggregates. While somemore » detailed finite element modeling (FEM) with crystal plasticity constitutive relations was done in the early 1980s, such simulations over taxed the capabilities of the available computer hardware. Advances in computer capability led to a flurry of activity in finite element modeling in the next 10 years, increasing understanding of microstructure evolution and pushing the limits of theories and material characterization. Automated Electron Back Scatter Diffraction (EBSD) has produced a similar revolution in material characterization. The data collected is extensive and many questions about the evolution of microstructure and its role in determining mechanic properties can now be addressed. It is also now possible to obtain sufficient information about lattice orientations on a fine enough scale to allow detailed quantitative comparisons of experiments and newly emerging large scale numerical simulations. The insight gained from the coupling of EBSD and FEM studies will provide impetus for further development of microstructure models and theories of microstructure evolution. Early studies connecting EBSD data to finite element models used manual measurements to define initial orientations for the simulation. In one study, manual measurements of the deformed structure were also obtained for comparison with the model predictions. More recent work has taken advantage of automated data collection on deformed specimens as a means of collecting detailed and spatially correlated data for model validation. Although it will not be discussed in detail here, another area in which EBSD data is having a great impact is on recrystallization modeling. EBSD techniques can be used to collect data for quantitative microstructural analysis. This data can be used to infer growth kinetics of specific orientations, and this information can be synthesized into more accurate grain growth or recrystallization models. Another role which EBSD techniques may play is in determining initial structures for recrystallization models. A realistic starting structure is vital for evaluating the models, and attempts at predicting realistic structures with finite element simulations are not yet successful. As methodologies and equipment resolution continue to improve, it is possible that measured structures will serve as input for recrystallization models. Simulations have already been run using information obtained manually from a TEM.« less

Mechanisms controlling primary and new production in a global ecosystem model - Part I: Validation of the biological simulation

NASA Astrophysics Data System (ADS)

Popova, E. E.; Coward, A. C.; Nurser, G. A.; de Cuevas, B.; Fasham, M. J. R.; Anderson, T. R.

2006-12-01

A global general circulation model coupled to a simple six-compartment ecosystem model is used to study the extent to which global variability in primary and export production can be realistically predicted on the basis of advanced parameterizations of upper mixed layer physics, without recourse to introducing extra complexity in model biology. The "K profile parameterization" (KPP) scheme employed, combined with 6-hourly external forcing, is able to capture short-term periodic and episodic events such as diurnal cycling and storm-induced deepening. The model realistically reproduces various features of global ecosystem dynamics that have been problematic in previous global modelling studies, using a single generic parameter set. The realistic simulation of deep convection in the North Atlantic, and lack of it in the North Pacific and Southern Oceans, leads to good predictions of chlorophyll and primary production in these contrasting areas. Realistic levels of primary production are predicted in the oligotrophic gyres due to high frequency external forcing of the upper mixed layer (accompanying paper Popova et al., 2006) and novel parameterizations of zooplankton excretion. Good agreement is shown between model and observations at various JGOFS time series sites: BATS, KERFIX, Papa and HOT. One exception is the northern North Atlantic where lower grazing rates are needed, perhaps related to the dominance of mesozooplankton there. The model is therefore not globally robust in the sense that additional parameterizations are needed to realistically simulate ecosystem dynamics in the North Atlantic. Nevertheless, the work emphasises the need to pay particular attention to the parameterization of mixed layer physics in global ocean ecosystem modelling as a prerequisite to increasing the complexity of ecosystem models.

An operational global-scale ocean thermal analysis system

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

Clancy, R. M.; Pollak, K.D.; Phoebus, P.A.

1990-04-01

The Optimum Thermal Interpolation System (OTIS) is an ocean thermal analysis system designed for operational use at FNOC. It is based on the optimum interpolation of the assimilation technique and functions in an analysis-prediction-analysis data assimilation cycle with the TOPS mixed-layer model. OTIS provides a rigorous framework for combining real-time data, climatology, and predictions from numerical ocean prediction models to produce a large-scale synoptic representation of ocean thermal structure. The techniques and assumptions used in OTIS are documented and results of operational tests of global scale OTIS at FNOC are presented. The tests involved comparisons of OTIS against an existingmore » operational ocean thermal structure model and were conducted during February, March, and April 1988. Qualitative comparison of the two products suggests that OTIS gives a more realistic representation of subsurface anomalies and horizontal gradients and that it also gives a more accurate analysis of the thermal structure, with improvements largest below the mixed layer. 37 refs.« less

Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm

PubMed Central

Yu, Isseki; Mori, Takaharu; Ando, Tadashi; Harada, Ryuhei; Jung, Jaewoon; Sugita, Yuji; Feig, Michael

2016-01-01

Biological macromolecules function in highly crowded cellular environments. The structure and dynamics of proteins and nucleic acids are well characterized in vitro, but in vivo crowding effects remain unclear. Using molecular dynamics simulations of a comprehensive atomistic model cytoplasm we found that protein-protein interactions may destabilize native protein structures, whereas metabolite interactions may induce more compact states due to electrostatic screening. Protein-protein interactions also resulted in significant variations in reduced macromolecular diffusion under crowded conditions, while metabolites exhibited significant two-dimensional surface diffusion and altered protein-ligand binding that may reduce the effective concentration of metabolites and ligands in vivo. Metabolic enzymes showed weak non-specific association in cellular environments attributed to solvation and entropic effects. These effects are expected to have broad implications for the in vivo functioning of biomolecules. This work is a first step towards physically realistic in silico whole-cell models that connect molecular with cellular biology. DOI: http://dx.doi.org/10.7554/eLife.19274.001 PMID:27801646

Active vibration absorber for CSI evolutionary model: Design and experimental results

NASA Technical Reports Server (NTRS)

Bruner, Anne M.; Belvin, W. Keith; Horta, Lucas G.; Juang, Jer-Nan

1991-01-01

The development of control of large flexible structures technology must include practical demonstration to aid in the understanding and characterization of controlled structures in space. To support this effort, a testbed facility was developed to study practical implementation of new control technologies under realistic conditions. The design is discussed of a second order, acceleration feedback controller which acts as an active vibration absorber. This controller provides guaranteed stability margins for collocated sensor/actuator pairs in the absence of sensor/actuator dynamics and computational time delay. The primary performance objective considered is damping augmentation of the first nine structural modes. Comparison of experimental and predicted closed loop damping is presented, including test and simulation time histories for open and closed loop cases. Although the simulation and test results are not in full agreement, robustness of this design under model uncertainty is demonstrated. The basic advantage of this second order controller design is that the stability of the controller is model independent.

Modified Distribution-Free Goodness-of-Fit Test Statistic.

PubMed

Chun, So Yeon; Browne, Michael W; Shapiro, Alexander

2018-03-01

Covariance structure analysis and its structural equation modeling extensions have become one of the most widely used methodologies in social sciences such as psychology, education, and economics. An important issue in such analysis is to assess the goodness of fit of a model under analysis. One of the most popular test statistics used in covariance structure analysis is the asymptotically distribution-free (ADF) test statistic introduced by Browne (Br J Math Stat Psychol 37:62-83, 1984). The ADF statistic can be used to test models without any specific distribution assumption (e.g., multivariate normal distribution) of the observed data. Despite its advantage, it has been shown in various empirical studies that unless sample sizes are extremely large, this ADF statistic could perform very poorly in practice. In this paper, we provide a theoretical explanation for this phenomenon and further propose a modified test statistic that improves the performance in samples of realistic size. The proposed statistic deals with the possible ill-conditioning of the involved large-scale covariance matrices.

Studying light-harvesting models with superconducting circuits.

PubMed

Potočnik, Anton; Bargerbos, Arno; Schröder, Florian A Y N; Khan, Saeed A; Collodo, Michele C; Gasparinetti, Simone; Salathé, Yves; Creatore, Celestino; Eichler, Christopher; Türeci, Hakan E; Chin, Alex W; Wallraff, Andreas

2018-03-02

The process of photosynthesis, the main source of energy in the living world, converts sunlight into chemical energy. The high efficiency of this process is believed to be enabled by an interplay between the quantum nature of molecular structures in photosynthetic complexes and their interaction with the environment. Investigating these effects in biological samples is challenging due to their complex and disordered structure. Here we experimentally demonstrate a technique for studying photosynthetic models based on superconducting quantum circuits, which complements existing experimental, theoretical, and computational approaches. We demonstrate a high degree of freedom in design and experimental control of our approach based on a simplified three-site model of a pigment protein complex with realistic parameters scaled down in energy by a factor of 10 5 . We show that the excitation transport between quantum-coherent sites disordered in energy can be enabled through the interaction with environmental noise. We also show that the efficiency of the process is maximized for structured noise resembling intramolecular phononic environments found in photosynthetic complexes.

Mathematical modeling in realistic mathematics education

NASA Astrophysics Data System (ADS)

Riyanto, B.; Zulkardi; Putri, R. I. I.; Darmawijoyo

2017-12-01

The purpose of this paper is to produce Mathematical modelling in Realistics Mathematics Education of Junior High School. This study used development research consisting of 3 stages, namely analysis, design and evaluation. The success criteria of this study were obtained in the form of local instruction theory for school mathematical modelling learning which was valid and practical for students. The data were analyzed using descriptive analysis method as follows: (1) walk through, analysis based on the expert comments in the expert review to get Hypothetical Learning Trajectory for valid mathematical modelling learning; (2) analyzing the results of the review in one to one and small group to gain practicality. Based on the expert validation and students’ opinion and answers, the obtained mathematical modeling problem in Realistics Mathematics Education was valid and practical.

Space charge induced resonance excitation in high intensity rings

NASA Astrophysics Data System (ADS)

Cousineau, S.; Lee, S. Y.; Holmes, J. A.; Danilov, V.; Fedotov, A.

2003-03-01

We present a particle core model study of the space charge effect on high intensity synchrotron beams, with specific emphasis on the Proton Storage Ring (PSR) at Los Alamos National Laboratory. Our particle core model formulation includes realistic lattice focusing and dispersion. We transport both matched and mismatched beams through real lattice structure and compare the results with those of an equivalent uniform-focusing approximation. The effects of lattice structure and finite momentum spread on the resonance behavior are specifically targeted. Stroboscopic maps of the mismatched envelope are constructed and show high-order resonances and stochastic effects that dominate at high mismatch or high intensity. We observe the evolution of the envelope phase-space structure during a high intensity PSR beam accumulation. Finally, we examine the envelope-particle parametric resonance condition and discuss the possibility for halo growth in synchrotron beams due to this mechanism.

The simulation approach to lipid-protein interactions.

PubMed

Paramo, Teresa; Garzón, Diana; Holdbrook, Daniel A; Khalid, Syma; Bond, Peter J

2013-01-01

The interactions between lipids and proteins are crucial for a range of biological processes, from the folding and stability of membrane proteins to signaling and metabolism facilitated by lipid-binding proteins. However, high-resolution structural details concerning functional lipid/protein interactions are scarce due to barriers in both experimental isolation of native lipid-bound complexes and subsequent biophysical characterization. The molecular dynamics (MD) simulation approach provides a means to complement available structural data, yielding dynamic, structural, and thermodynamic data for a protein embedded within a physiologically realistic, modelled lipid environment. In this chapter, we provide a guide to current methods for setting up and running simulations of membrane proteins and soluble, lipid-binding proteins, using standard atomistically detailed representations, as well as simplified, coarse-grained models. In addition, we outline recent studies that illustrate the power of the simulation approach in the context of biologically relevant lipid/protein interactions.

Towards Effective Clustering Techniques for the Analysis of Electric Power Grids

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

Hogan, Emilie A.; Cotilla Sanchez, Jose E.; Halappanavar, Mahantesh

2013-11-30

Clustering is an important data analysis technique with numerous applications in the analysis of electric power grids. Standard clustering techniques are oblivious to the rich structural and dynamic information available for power grids. Therefore, by exploiting the inherent topological and electrical structure in the power grid data, we propose new methods for clustering with applications to model reduction, locational marginal pricing, phasor measurement unit (PMU or synchrophasor) placement, and power system protection. We focus our attention on model reduction for analysis based on time-series information from synchrophasor measurement devices, and spectral techniques for clustering. By comparing different clustering techniques onmore » two instances of realistic power grids we show that the solutions are related and therefore one could leverage that relationship for a computational advantage. Thus, by contrasting different clustering techniques we make a case for exploiting structure inherent in the data with implications for several domains including power systems.« less

Biological signatures of dynamic river networks from a coupled landscape evolution and neutral community model

NASA Astrophysics Data System (ADS)

Stokes, M.; Perron, J. T.

2017-12-01

Freshwater systems host exceptionally species-rich communities whose spatial structure is dictated by the topology of the river networks they inhabit. Over geologic time, river networks are dynamic; drainage basins shrink and grow, and river capture establishes new connections between previously separated regions. It has been hypothesized that these changes in river network structure influence the evolution of life by exchanging and isolating species, perhaps boosting biodiversity in the process. However, no general model exists to predict the evolutionary consequences of landscape change. We couple a neutral community model of freshwater organisms to a landscape evolution model in which the river network undergoes drainage divide migration and repeated river capture. Neutral community models are macro-ecological models that include stochastic speciation and dispersal to produce realistic patterns of biodiversity. We explore the consequences of three modes of speciation - point mutation, time-protracted, and vicariant (geographic) speciation - by tracking patterns of diversity in time and comparing the final result to an equilibrium solution of the neutral model on the final landscape. Under point mutation, a simple model of stochastic and instantaneous speciation, the results are identical to the equilibrium solution and indicate the dominance of the species-area relationship in forming patterns of diversity. The number of species in a basin is proportional to its area, and regional species richness reaches its maximum when drainage area is evenly distributed among sub-basins. Time-protracted speciation is also modeled as a stochastic process, but in order to produce more realistic rates of diversification, speciation is not assumed to be instantaneous. Rather, each new species must persist for a certain amount of time before it is considered to be established. When vicariance (geographic speciation) is included, there is a transient signature of increased regional diversity after river capture. The results indicate that the mode of speciation and the rate of speciation relative to the rate of divide migration determine the evolutionary signature of river capture.

Numerical dosimetry of transcranial magnetic stimulation coils

NASA Astrophysics Data System (ADS)

Crowther, Lawrence; Hadimani, Ravi; Jiles, David

2014-03-01

Transcranial magnetic stimulation (TMS) is a non-invasive neuromodulation technique capable of stimulating neurons by means of electromagnetic induction. TMS can be used to map brain function and shows promise for the diagnosis and treatment of neurological and psychiatric disorders. Calculation of fields induced in the brain are necessary to accurately identify stimulated neural tissue during TMS. This allows the development of novel TMS coil designs capable of stimulating deeper brain regions and increasing the localization of stimulation that can be achieved. We have performed numerical calculations of magnetic and electric field with high-resolution anatomically realistic human head models to find these stimulated brain regions for a variety of proposed TMS coil designs. The realistic head models contain heterogeneous tissue structures and electrical conductivities, yielding superior results to those obtained from the simplified homogeneous head models that are commonly employed. The attenuation of electric field as a function of depth in the brain and the localization of stimulating field have been methodically investigated. In addition to providing a quantitative comparison of different TMS coil designs the variation of induced field between subjects has been investigated. We also show the differences in induced fields between adult, adolescent and child head models to preemptively identify potential safety issues in the application of pediatric TMS.

Integrating bioclimate with population models to improve forecasts of species extinctions under climate change.

PubMed

Brook, Barry W; Akçakaya, H Resit; Keith, David A; Mace, Georgina M; Pearson, Richard G; Araújo, Miguel B

2009-12-23

Climate change is already affecting species worldwide, yet existing methods of risk assessment have not considered interactions between demography and climate and their simultaneous effect on habitat distribution and population viability. To address this issue, an international workshop was held at the University of Adelaide in Australia, 25-29 May 2009, bringing leading species distribution and population modellers together with plant ecologists. Building on two previous workshops in the UK and Spain, the participants aimed to develop methodological standards and case studies for integrating bioclimatic and metapopulation models, to provide more realistic forecasts of population change, habitat fragmentation and extinction risk under climate change. The discussions and case studies focused on several challenges, including spatial and temporal scale contingencies, choice of predictive climate, land use, soil type and topographic variables, procedures for ensemble forecasting of both global climate and bioclimate models and developing demographic structures that are realistic and species-specific and yet allow generalizations of traits that make species vulnerable to climate change. The goal is to provide general guidelines for assessing the Red-List status of large numbers of species potentially at risk, owing to the interactions of climate change with other threats such as habitat destruction, overexploitation and invasive species.

Power handling of a segmented bulk W tile for JET under realistic plasma scenarios

NASA Astrophysics Data System (ADS)

Jet-Efda Contributors Mertens, Ph.; Coenen, J. W.; Eich, T.; Huber, A.; Jachmich, S.; Nicolai, D.; Riccardo, V.; Senik, K.; Samm, U.

2011-08-01

A solid tungsten divertor row has been designed for JET in the frame of the ITER-like Wall project (ILW). The plasma-facing tiles are segmented in four stacks of tungsten lamellae oriented in the toroidal direction. Earlier estimations of the expected tile performance were carried out mostly for engineering purposes, to compare the permissible heat load with the power density of 7 MW/m2 originally specified for the ILW as a uniform load for 10 s.The global thermal model developed for the W modules delivers results for more realistic plasma footprints: the poloidal extension of the outer strike point was reduced from the full lamella width of 62 mm to ⩾15 mm. Model validation is given by the experimental exposure of a 1:1 prototype stack in the ion beam facility MARION (incidence ˜6°, load E ⩽ 66 MJ/m2 on the wetted surface). Spreading the deposited energy by appropriate sweeping over one or several stacks in the torus is beneficial for the tungsten lamellae and for the support structure.

Distribution of nuclei in equilibrium stellar matter from the free-energy density in a Wigner-Seitz cell

NASA Astrophysics Data System (ADS)

Grams, G.; Giraud, S.; Fantina, A. F.; Gulminelli, F.

2018-03-01

The aim of the present study is to calculate the nuclear distribution associated at finite temperature to any given equation of state of stellar matter based on the Wigner-Seitz approximation, for direct applications in core-collapse simulations. The Gibbs free energy of the different configurations is explicitly calculated, with special care devoted to the calculation of rearrangement terms, ensuring thermodynamic consistency. The formalism is illustrated with two different applications. First, we work out the nuclear statistical equilibrium cluster distribution for the Lattimer and Swesty equation of state, widely employed in supernova simulations. Secondly, we explore the effect of including shell structure, and consider realistic nuclear mass tables from the Brussels-Montreal Hartree-Fock-Bogoliubov model (specifically, HFB-24). We show that the whole collapse trajectory is dominated by magic nuclei, with extremely spread and even bimodal distributions of the cluster probability around magic numbers, demonstrating the importance of cluster distributions with realistic mass models in core-collapse simulations. Simple analytical expressions are given, allowing further applications of the method to any relativistic or nonrelativistic subsaturation equation of state.

OESbathy version 1.0: a method for reconstructing ocean bathymetry with realistic continental shelf-slope-rise structures

NASA Astrophysics Data System (ADS)

Goswami, A.; Olson, P. L.; Hinnov, L. A.; Gnanadesikan, A.

2015-04-01

We present a method for reconstructing global ocean bathymetry that uses a plate cooling model for the oceanic lithosphere, the age distribution of the oceanic crust, global oceanic sediment thicknesses, plus shelf-slope-rise structures calibrated at modern active and passive continental margins. Our motivation is to reconstruct realistic ocean bathymetry based on parameterized relationships of present-day variables that can be applied to global oceans in the geologic past, and to isolate locations where anomalous processes such as mantle convection may affect bathymetry. Parameters of the plate cooling model are combined with ocean crustal age to calculate depth-to-basement. To the depth-to-basement we add an isostatically adjusted, multicomponent sediment layer, constrained by sediment thickness in the modern oceans and marginal seas. A continental shelf-slope-rise structure completes the bathymetry reconstruction, extending from the ocean crust to the coastlines. Shelf-slope-rise structures at active and passive margins are parameterized using modern ocean bathymetry at locations where a complete history of seafloor spreading is preserved. This includes the coastal regions of the North, South, and Central Atlantic Ocean, the Southern Ocean between Australia and Antarctica, and the Pacific Ocean off the west coast of South America. The final products are global maps at 0.1° × 0.1° resolution of depth-to-basement, ocean bathymetry with an isostatically adjusted, multicomponent sediment layer, and ocean bathymetry with reconstructed continental shelf-slope-rise structures. Our reconstructed bathymetry agrees with the measured ETOPO1 bathymetry at most passive margins, including the east coast of North America, north coast of the Arabian Sea, and northeast and southeast coasts of South America. There is disagreement at margins with anomalous continental shelf-slope-rise structures, such as around the Arctic Ocean, the Falkland Islands, and Indonesia.

The network organization of protein interactions in the spliceosome is reproduced by the simple rules of food-web models

PubMed Central

Pires, Mathias M.; Cantor, Maurício; Guimarães, Paulo R.; de Aguiar, Marcus A. M.; dos Reis, Sérgio F.; Coltri, Patricia P.

2015-01-01

The network structure of biological systems provides information on the underlying processes shaping their organization and dynamics. Here we examined the structure of the network depicting protein interactions within the spliceosome, the macromolecular complex responsible for splicing in eukaryotic cells. We show the interactions of less connected spliceosome proteins are nested subsets of the connections of the highly connected proteins. At the same time, the network has a modular structure with groups of proteins sharing similar interaction patterns. We then investigated the role of affinity and specificity in shaping the spliceosome network by adapting a probabilistic model originally designed to reproduce food webs. This food-web model was as successful in reproducing the structure of protein interactions as it is in reproducing interactions among species. The good performance of the model suggests affinity and specificity, partially determined by protein size and the timing of association to the complex, may be determining network structure. Moreover, because network models allow building ensembles of realistic networks while encompassing uncertainty they can be useful to examine the dynamics and vulnerability of intracelullar processes. Unraveling the mechanisms organizing the spliceosome interactions is important to characterize the role of individual proteins on splicing catalysis and regulation. PMID:26443080

Misrepresentation and amendment of soil moisture in conceptual hydrological modelling

NASA Astrophysics Data System (ADS)

Zhuo, Lu; Han, Dawei

2016-04-01

Although many conceptual models are very effective in simulating river runoff, their soil moisture schemes are generally not realistic in comparison with the reality (i.e., getting the right answers for the wrong reasons). This study reveals two significant misrepresentations in those models through a case study using the Xinanjiang model which is representative of many well-known conceptual hydrological models. The first is the setting of the upper limit of its soil moisture at the field capacity, due to the 'holding excess runoff' concept (i.e., runoff begins on repletion of its storage to the field capacity). The second is neglect of capillary rise of water movement. A new scheme is therefore proposed to overcome those two issues. The amended model is as effective as its original form in flow modelling, but represents more logically realistic soil water processes. The purpose of the study is to enable the hydrological model to get the right answers for the right reasons. Therefore, the new model structure has a better capability in potentially assimilating soil moisture observations to enhance its real-time flood forecasting accuracy. The new scheme is evaluated in the Pontiac catchment of the USA through a comparison with satellite observed soil moisture. The correlation between the XAJ and the observed soil moisture is enhanced significantly from 0.64 to 0.70. In addition, a new soil moisture term called SMDS (Soil Moisture Deficit to Saturation) is proposed to complement the conventional SMD (Soil Moisture Deficit).

Multiple Point Statistics algorithm based on direct sampling and multi-resolution images

NASA Astrophysics Data System (ADS)

Julien, S.; Renard, P.; Chugunova, T.

2017-12-01

Multiple Point Statistics (MPS) has become popular for more than one decade in Earth Sciences, because these methods allow to generate random fields reproducing highly complex spatial features given in a conceptual model, the training image, while classical geostatistics techniques based on bi-point statistics (covariance or variogram) fail to generate realistic models. Among MPS methods, the direct sampling consists in borrowing patterns from the training image to populate a simulation grid. This latter is sequentially filled by visiting each of these nodes in a random order, and then the patterns, whose the number of nodes is fixed, become narrower during the simulation process, as the simulation grid is more densely informed. Hence, large scale structures are caught in the beginning of the simulation and small scale ones in the end. However, MPS may mix spatial characteristics distinguishable at different scales in the training image, and then loose the spatial arrangement of different structures. To overcome this limitation, we propose to perform MPS simulation using a decomposition of the training image in a set of images at multiple resolutions. Applying a Gaussian kernel onto the training image (convolution) results in a lower resolution image, and iterating this process, a pyramid of images depicting fewer details at each level is built, as it can be done in image processing for example to lighten the space storage of a photography. The direct sampling is then employed to simulate the lowest resolution level, and then to simulate each level, up to the finest resolution, conditioned to the level one rank coarser. This scheme helps reproduce the spatial structures at any scale of the training image and then generate more realistic models. We illustrate the method with aerial photographies (satellite images) and natural textures. Indeed, these kinds of images often display typical structures at different scales and are well-suited for MPS simulation techniques.

Crosstalk in solar polarization measurements

NASA Technical Reports Server (NTRS)

West, E. A.; Balasubramaniam, K. S.

1992-01-01

The instrumental crosstalk associated with the Marshall Space Flight Center Vector Magnetograph and the solar crosstalk created by the magnetic field are described and their impact on the reconstruction of the solar vector magnetic field is analyzed. It is pointed out that identifying and correcting the crosstalk is important in the development of realistic models describing the solar atmosphere. Solar crosstalk is spatially dependent on the structure of the magnetic field while instrumental crosstalk is dependent on the position of the analyzer.

Helioseismology of a Realistic Magnetoconvective Sunspot Simulation

NASA Technical Reports Server (NTRS)

Braun, D. C.; Birch, A. C.; Rempel, M.; Duvall, T. L., Jr.

2012-01-01

We compare helioseismic travel-time shifts measured from a realistic magnetoconvective sunspot simulation using both helioseismic holography and time-distance helioseismology, and measured from real sunspots observed with the Helioseismic and Magnetic Imager instrument on board the Solar Dynamics Observatory and the Michelson Doppler Imager instrument on board the Solar and Heliospheric Observatory. We find remarkable similarities in the travel-time shifts measured between the methodologies applied and between the simulated and real sunspots. Forward modeling of the travel-time shifts using either Born or ray approximation kernels and the sound-speed perturbations present in the simulation indicates major disagreements with the measured travel-time shifts. These findings do not substantially change with the application of a correction for the reduction of wave amplitudes in the simulated and real sunspots. Overall, our findings demonstrate the need for new methods for inferring the subsurface structure of sunspots through helioseismic inversions.

On the importance of 3D, geometrically accurate, and subject-specific finite element analysis for evaluation of in-vivo soft tissue loads.

PubMed

Moerman, Kevin M; van Vijven, Marc; Solis, Leandro R; van Haaften, Eline E; Loenen, Arjan C Y; Mushahwar, Vivian K; Oomens, Cees W J

2017-04-01

Pressure ulcers are a type of local soft tissue injury due to sustained mechanical loading and remain a common issue in patient care. People with spinal cord injury (SCI) are especially at risk of pressure ulcers due to impaired mobility and sensory perception. The development of load improving support structures relies on realistic tissue load evaluation e.g. using finite element analysis (FEA). FEA requires realistic subject-specific mechanical properties and geometries. This study focuses on the effect of geometry. MRI is used for the creation of geometrically accurate models of the human buttock for three able-bodied volunteers and three volunteers with SCI. The effect of geometry on observed internal tissue deformations for each subject is studied by comparing FEA findings for equivalent loading conditions. The large variations found between subjects confirms the importance of subject-specific FEA.

Linking macroscopic with microscopic neuroanatomy using synthetic neuronal populations.

PubMed

Schneider, Calvin J; Cuntz, Hermann; Soltesz, Ivan

2014-10-01

Dendritic morphology has been shown to have a dramatic impact on neuronal function. However, population features such as the inherent variability in dendritic morphology between cells belonging to the same neuronal type are often overlooked when studying computation in neural networks. While detailed models for morphology and electrophysiology exist for many types of single neurons, the role of detailed single cell morphology in the population has not been studied quantitatively or computationally. Here we use the structural context of the neural tissue in which dendritic trees exist to drive their generation in silico. We synthesize the entire population of dentate gyrus granule cells, the most numerous cell type in the hippocampus, by growing their dendritic trees within their characteristic dendritic fields bounded by the realistic structural context of (1) the granule cell layer that contains all somata and (2) the molecular layer that contains the dendritic forest. This process enables branching statistics to be linked to larger scale neuroanatomical features. We find large differences in dendritic total length and individual path length measures as a function of location in the dentate gyrus and of somatic depth in the granule cell layer. We also predict the number of unique granule cell dendrites invading a given volume in the molecular layer. This work enables the complete population-level study of morphological properties and provides a framework to develop complex and realistic neural network models.

Linking Macroscopic with Microscopic Neuroanatomy Using Synthetic Neuronal Populations

PubMed Central

Schneider, Calvin J.; Cuntz, Hermann; Soltesz, Ivan

2014-01-01

Dendritic morphology has been shown to have a dramatic impact on neuronal function. However, population features such as the inherent variability in dendritic morphology between cells belonging to the same neuronal type are often overlooked when studying computation in neural networks. While detailed models for morphology and electrophysiology exist for many types of single neurons, the role of detailed single cell morphology in the population has not been studied quantitatively or computationally. Here we use the structural context of the neural tissue in which dendritic trees exist to drive their generation in silico. We synthesize the entire population of dentate gyrus granule cells, the most numerous cell type in the hippocampus, by growing their dendritic trees within their characteristic dendritic fields bounded by the realistic structural context of (1) the granule cell layer that contains all somata and (2) the molecular layer that contains the dendritic forest. This process enables branching statistics to be linked to larger scale neuroanatomical features. We find large differences in dendritic total length and individual path length measures as a function of location in the dentate gyrus and of somatic depth in the granule cell layer. We also predict the number of unique granule cell dendrites invading a given volume in the molecular layer. This work enables the complete population-level study of morphological properties and provides a framework to develop complex and realistic neural network models. PMID:25340814

Bayesian inversion using a geologically realistic and discrete model space

NASA Astrophysics Data System (ADS)

Jaeggli, C.; Julien, S.; Renard, P.

2017-12-01

Since the early days of groundwater modeling, inverse methods play a crucial role. Many research and engineering groups aim to infer extensive knowledge of aquifer parameters from a sparse set of observations. Despite decades of dedicated research on this topic, there are still several major issues to be solved. In the hydrogeological framework, one is often confronted with underground structures that present very sharp contrasts of geophysical properties. In particular, subsoil structures such as karst conduits, channels, faults, or lenses, strongly influence groundwater flow and transport behavior of the underground. For this reason it can be essential to identify their location and shape very precisely. Unfortunately, when inverse methods are specially trained to consider such complex features, their computation effort often becomes unaffordably high. The following work is an attempt to solve this dilemma. We present a new method that is, in some sense, a compromise between the ergodicity of Markov chain Monte Carlo (McMC) methods and the efficient handling of data by the ensemble based Kalmann filters. The realistic and complex random fields are generated by a Multiple-Point Statistics (MPS) tool. Nonetheless, it is applicable with any conditional geostatistical simulation tool. Furthermore, the algorithm is independent of any parametrization what becomes most important when two parametric systems are equivalent (permeability and resistivity, speed and slowness, etc.). When compared to two existing McMC schemes, the computational effort was divided by a factor of 12.

Pore network extraction from pore space images of various porous media systems

NASA Astrophysics Data System (ADS)

Yi, Zhixing; Lin, Mian; Jiang, Wenbin; Zhang, Zhaobin; Li, Haishan; Gao, Jian

2017-04-01

Pore network extraction, which is defined as the transformation from irregular pore space to a simplified network in the form of pores connected by throats, is significant to microstructure analysis and network modeling. A physically realistic pore network is not only a representation of the pore space in the sense of topology and morphology, but also a good tool for predicting transport properties accurately. We present a method to extract pore network by employing the centrally located medial axis to guide the construction of maximal-balls-like skeleton where the pores and throats are defined and parameterized. To validate our method, various rock samples including sand pack, sandstones, and carbonates were used to extract pore networks. The pore structures were compared quantitatively with the structures extracted by medial axis method or maximal ball method. The predicted absolute permeability and formation factor were verified against the theoretical solutions obtained by lattice Boltzmann method and finite volume method, respectively. The two-phase flow was simulated through the networks extracted from homogeneous sandstones, and the generated relative permeability curves were compared with the data obtained from experimental method and other numerical models. The results show that the accuracy of our network is higher than that of other networks for predicting transport properties, so the presented method is more reliable for extracting physically realistic pore network.

Network structure of production

PubMed Central

Atalay, Enghin; Hortaçsu, Ali; Roberts, James; Syverson, Chad

2011-01-01

Complex social networks have received increasing attention from researchers. Recent work has focused on mechanisms that produce scale-free networks. We theoretically and empirically characterize the buyer–supplier network of the US economy and find that purely scale-free models have trouble matching key attributes of the network. We construct an alternative model that incorporates realistic features of firms’ buyer–supplier relationships and estimate the model’s parameters using microdata on firms’ self-reported customers. This alternative framework is better able to match the attributes of the actual economic network and aids in further understanding several important economic phenomena. PMID:21402924

Modeling direct interband tunneling. II. Lower-dimensional structures

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

Pan, Andrew, E-mail: pandrew@ucla.edu; Chui, Chi On; California NanoSystems Institute, University of California, Los Angeles, Los Angeles, California 90095

We investigate the applicability of the two-band Hamiltonian and the widely used Kane analytical formula to interband tunneling along unconfined directions in nanostructures. Through comparisons with k·p and tight-binding calculations and quantum transport simulations, we find that the primary correction is the change in effective band gap. For both constant fields and realistic tunnel field-effect transistors, dimensionally consistent band gap scaling of the Kane formula allows analytical and numerical device simulations to approximate non-equilibrium Green's function current characteristics without arbitrary fitting. This allows efficient first-order calibration of semiclassical models for interband tunneling in nanodevices.

Study of plasma-based stable and ultra-wideband electromagnetic wave absorption for stealth application

NASA Astrophysics Data System (ADS)

Xuyang, CHEN; Fangfang, SHEN; Yanming, LIU; Wei, AI; Xiaoping, LI

2018-06-01

A plasma-based stable, ultra-wideband electromagnetic (EM) wave absorber structure is studied in this paper for stealth applications. The stability is maintained by a multi-layer structure with several plasma layers and dielectric layers distributed alternately. The plasma in each plasma layer is designed to be uniform, whereas it has a discrete nonuniform distribution from the overall view of the structure. The nonuniform distribution of the plasma is the key to obtaining ultra-wideband wave absorption. A discrete Epstein distribution model is put forward to constrain the nonuniform electron density of the plasma layers, by which the wave absorption range is extended to the ultra-wideband. Then, the scattering matrix method (SMM) is employed to analyze the electromagnetic reflection and absorption of the absorber structure. In the simulation, the validation of the proposed structure and model in ultra-wideband EM wave absorption is first illustrated by comparing the nonuniform plasma model with the uniform case. Then, the influence of various parameters on the EM wave reflection of the plasma are simulated and analyzed in detail, verifying the EM wave absorption performance of the absorber. The proposed structure and model are expected to be superior in some realistic applications, such as supersonic aircraft.

Conjugate problems of transport phenomena under quasi-steady microaccelerations in realistic spaceflight.

PubMed

Polezhaev, V I; Nikitin, S A

2009-04-01

A new model for spatial convective transport processes conjugated with the measured or calculated realistic quasi-steady microaccelerations is presented. Rotation around the mass center, including accelerated rotation, gravity gradient, and aerodynamical drag are taken into account. New results of the effect on mixing and concentration inhomogeneities of the elementary convective processes are presented. The mixing problem in spacecraft enclosures, concentration inhomogeneities due to convection induced by body forces in realistic spaceflight, and the coupling of this kind of convection with thermocapillary convection on the basis of this model are discussed.

Investigation of Periodic-Disturbance Identification and Rejection in Spacecraft

DTIC Science & Technology

2006-08-01

linear theory. Therefore, it is of interest to examine its efficacy on the current nonlinear spacecraft model. In addition, the robustness of the...School, Monterey, California 93943 Spacecraft periodic-disturbance rejection using a realistic spacecraft hardware simulator and its associated models...is investigated. The effectiveness of the dipole-type disturbance rejection filter on the current realistic nonlinear rigid-body spacecraft model is

An "age"-structured model of hematopoietic stem cell organization with application to chronic myeloid leukemia.

PubMed

Roeder, Ingo; Herberg, Maria; Horn, Matthias

2009-04-01

Previously, we have modeled hematopoietic stem cell organization by a stochastic, single cell-based approach. Applications to different experimental systems demonstrated that this model consistently explains a broad variety of in vivo and in vitro data. A major advantage of the agent-based model (ABM) is the representation of heterogeneity within the hematopoietic stem cell population. However, this advantage comes at the price of time-consuming simulations if the systems become large. One example in this respect is the modeling of disease and treatment dynamics in patients with chronic myeloid leukemia (CML), where the realistic number of individual cells to be considered exceeds 10(6). To overcome this deficiency, without losing the representation of the inherent heterogeneity of the stem cell population, we here propose to approximate the ABM by a system of partial differential equations (PDEs). The major benefit of such an approach is its independence from the size of the system. Although this mean field approach includes a number of simplifying assumptions compared to the ABM, it retains the key structure of the model including the "age"-structure of stem cells. We show that the PDE model qualitatively and quantitatively reproduces the results of the agent-based approach.

Realistic Features in Analysing the Effect of the Seismic Motion upon Localized Structures Considering Base Isolation Influence on Their Dynamic Behaviour

NASA Astrophysics Data System (ADS)

Apostol, Bogdan Felix; Florin Balan, Stefan; Ionescu, Constantin

2017-12-01

The effects of the earthquakes on buildings and the concept of seismic base isolation are investigated by using the model of the vibrating bar embedded at one end. The normal modes and the eigenfrequencies of the bar are highlighted and the amplification of the response due to the excitation of the normal modes (eigenmodes) is computed. The effect is much enhanced at resonance, for oscillating shocks which contain eigenfrequencies of the bar. Also, the response of two linearly joined bars with one end embedded is calculated. It is shown that for very different elastic properties the eigenfrequencies are due mainly to the “softer” bar. The effect of the base isolation in seismic structural engineering is assessed by formulating the model of coupled harmonic oscillators, as a simplified model for the structure building-foundation viewed as two coupled vibrating bars. The coupling decreases the lower eigenfrequencies of the structure and increases the higher ones. Similar amplification factors are derived for coupled oscillators at resonance with an oscillating shock.

Electrostatic Structure and Double-Probe Performance in Tenuous Plasmas

NASA Astrophysics Data System (ADS)

Cully, C. M.; Ergun, R. E.

2006-12-01

Many in-situ plasma instruments are affected by the local electrostatic structure surrounding the spacecraft. In order to better understand this structure, we have developed a fully 3-dimensional self-consistent model that uses realistic spacecraft geometry, including thin (<1 mm) wires and long (>100m) booms, with open boundary conditions. One of the more surprising results is that in tenuous plasmas, the charge on the booms can dominate over the charge on the spacecraft body. For instruments such as electric field double probes and boom-mounted low-energy particle detectors, this challenges the existing paradigm: long booms do not allow the probes to escape the spacecraft potential. Instead, the potential structure simply expands as the boom is deployed. We then apply our model to the double-probe Electric Field and Waves (EFW) instruments on Cluster, and predict the magnitudes of the main error sources. The overall error budget is consistent with experiment, and the model yields some additional interesting insights. We show that the charge in the photoelectron cloud is relatively unimportant, and that the spacecraft potential is typically underestimated by about 20% by double-probe experiments.

Systematic Construction of Kinetic Models from Genome-Scale Metabolic Networks

PubMed Central

Smallbone, Kieran; Klipp, Edda; Mendes, Pedro; Liebermeister, Wolfram

2013-01-01

The quantitative effects of environmental and genetic perturbations on metabolism can be studied in silico using kinetic models. We present a strategy for large-scale model construction based on a logical layering of data such as reaction fluxes, metabolite concentrations, and kinetic constants. The resulting models contain realistic standard rate laws and plausible parameters, adhere to the laws of thermodynamics, and reproduce a predefined steady state. These features have not been simultaneously achieved by previous workflows. We demonstrate the advantages and limitations of the workflow by translating the yeast consensus metabolic network into a kinetic model. Despite crudely selected data, the model shows realistic control behaviour, a stable dynamic, and realistic response to perturbations in extracellular glucose concentrations. The paper concludes by outlining how new data can continuously be fed into the workflow and how iterative model building can assist in directing experiments. PMID:24324546

A method of emotion contagion for crowd evacuation

NASA Astrophysics Data System (ADS)

Cao, Mengxiao; Zhang, Guijuan; Wang, Mengsi; Lu, Dianjie; Liu, Hong

2017-10-01

The current evacuation model does not consider the impact of emotion and personality on crowd evacuation. Thus, there is large difference between evacuation results and the real-life behavior of the crowd. In order to generate more realistic crowd evacuation results, we present a method of emotion contagion for crowd evacuation. First, we combine OCEAN (Openness, Extroversion, Agreeableness, Neuroticism, Conscientiousness) model and SIS (Susceptible Infected Susceptible) model to construct the P-SIS (Personalized SIS) emotional contagion model. The P-SIS model shows the diversity of individuals in crowd effectively. Second, we couple the P-SIS model with the social force model to simulate emotional contagion on crowd evacuation. Finally, the photo-realistic rendering method is employed to obtain the animation of crowd evacuation. Experimental results show that our method can simulate crowd evacuation realistically and has guiding significance for crowd evacuation in the emergency circumstances.

Modeling the Gulf Stream System: How Far from Reality?

NASA Technical Reports Server (NTRS)

Choa, Yi; Gangopadhyay, Avijit; Bryan, Frank O.; Holland, William R.

1996-01-01

Analyses of a primitive equation ocean model simulation of the Atlantic Ocean circulation at 1/6 deg horizontal resolution are presented with a focus on the Gulf Stream region. Among many successful features of this simulation, this letter describes the Gulf Stream separation from the coast of North America near Cape Hatteras, meandering of the Gulf Stream between Cape Hatteras and the Grand Banks, and the vertical structure of temperature and velocity associated with the Gulf Stream. These results demonstrate significant improvement in modeling the Gulf Stream system using basin- to global scale ocean general circulation models. Possible reasons responsible for the realistic Gulf Stream simulation are discussed, contrasting the major differences between the present model configuration and those of previous eddy resolving studies.

Atomic level insights into realistic molecular models of dendrimer-drug complexes through MD simulations.

PubMed

Jain, Vaibhav; Maiti, Prabal K; Bharatam, Prasad V

2016-09-28

Computational studies performed on dendrimer-drug complexes usually consider 1:1 stoichiometry, which is far from reality, since in experiments more number of drug molecules get encapsulated inside a dendrimer. In the present study, molecular dynamic (MD) simulations were implemented to characterize the more realistic molecular models of dendrimer-drug complexes (1:n stoichiometry) in order to understand the effect of high drug loading on the structural properties and also to unveil the atomistic level details. For this purpose, possible inclusion complexes of model drug Nateglinide (Ntg) (antidiabetic, belongs to Biopharmaceutics Classification System class II) with amine- and acetyl-terminated G4 poly(amidoamine) (G4 PAMAM(NH 2 ) and G4 PAMAM(Ac)) dendrimers at neutral and low pH conditions are explored in this work. MD simulation analysis on dendrimer-drug complexes revealed that the drug encapsulation efficiency of G4 PAMAM(NH 2 ) and G4 PAMAM(Ac) dendrimers at neutral pH was 6 and 5, respectively, while at low pH it was 12 and 13, respectively. Center-of-mass distance analysis showed that most of the drug molecules are located in the interior hydrophobic pockets of G4 PAMAM(NH 2 ) at both the pH; while in the case of G4 PAMAM(Ac), most of them are distributed near to the surface at neutral pH and in the interior hydrophobic pockets at low pH. Structural properties such as radius of gyration, shape, radial density distribution, and solvent accessible surface area of dendrimer-drug complexes were also assessed and compared with that of the drug unloaded dendrimers. Further, binding energy calculations using molecular mechanics Poisson-Boltzmann surface area approach revealed that the location of drug molecules in the dendrimer is not the decisive factor for the higher and lower binding affinity of the complex, but the charged state of dendrimer and drug, intermolecular interactions, pH-induced conformational changes, and surface groups of dendrimer do play an important role in the stabilization of complex. Interestingly, it was observed from the equilibrated structures of dendrimer-drug complexes at low pH that encapsulated drug molecules in the G4 PAMAM(NH 2 ) formed cluster, while in the case of nontoxic G4 PAMAM(Ac) they were uniformly distributed inside the dendritic cavities. Thus, the latter dendrimer is suggested to be suitable nanovehicle for the delivery of Ntg. This computational analysis highlighted the importance of realistic molecular models of dendrimer-drug complexes (1:n) in order to obtain reliable results.

Atomic level insights into realistic molecular models of dendrimer-drug complexes through MD simulations

NASA Astrophysics Data System (ADS)

Jain, Vaibhav; Maiti, Prabal K.; Bharatam, Prasad V.

2016-09-01

Computational studies performed on dendrimer-drug complexes usually consider 1:1 stoichiometry, which is far from reality, since in experiments more number of drug molecules get encapsulated inside a dendrimer. In the present study, molecular dynamic (MD) simulations were implemented to characterize the more realistic molecular models of dendrimer-drug complexes (1:n stoichiometry) in order to understand the effect of high drug loading on the structural properties and also to unveil the atomistic level details. For this purpose, possible inclusion complexes of model drug Nateglinide (Ntg) (antidiabetic, belongs to Biopharmaceutics Classification System class II) with amine- and acetyl-terminated G4 poly(amidoamine) (G4 PAMAM(NH2) and G4 PAMAM(Ac)) dendrimers at neutral and low pH conditions are explored in this work. MD simulation analysis on dendrimer-drug complexes revealed that the drug encapsulation efficiency of G4 PAMAM(NH2) and G4 PAMAM(Ac) dendrimers at neutral pH was 6 and 5, respectively, while at low pH it was 12 and 13, respectively. Center-of-mass distance analysis showed that most of the drug molecules are located in the interior hydrophobic pockets of G4 PAMAM(NH2) at both the pH; while in the case of G4 PAMAM(Ac), most of them are distributed near to the surface at neutral pH and in the interior hydrophobic pockets at low pH. Structural properties such as radius of gyration, shape, radial density distribution, and solvent accessible surface area of dendrimer-drug complexes were also assessed and compared with that of the drug unloaded dendrimers. Further, binding energy calculations using molecular mechanics Poisson-Boltzmann surface area approach revealed that the location of drug molecules in the dendrimer is not the decisive factor for the higher and lower binding affinity of the complex, but the charged state of dendrimer and drug, intermolecular interactions, pH-induced conformational changes, and surface groups of dendrimer do play an important role in the stabilization of complex. Interestingly, it was observed from the equilibrated structures of dendrimer-drug complexes at low pH that encapsulated drug molecules in the G4 PAMAM(NH2) formed cluster, while in the case of nontoxic G4 PAMAM(Ac) they were uniformly distributed inside the dendritic cavities. Thus, the latter dendrimer is suggested to be suitable nanovehicle for the delivery of Ntg. This computational analysis highlighted the importance of realistic molecular models of dendrimer-drug complexes (1:n) in order to obtain reliable results.

A novel approach for introducing cloud spatial structure into cloud radiative transfer parameterizations

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

Huang, Dong; Liu, Yangang

2014-12-18

Subgrid-scale variability is one of the main reasons why parameterizations are needed in large-scale models. Although some parameterizations started to address the issue of subgrid variability by introducing a subgrid probability distribution function for relevant quantities, the spatial structure has been typically ignored and thus the subgrid-scale interactions cannot be accounted for physically. Here we present a new statistical-physics-like approach whereby the spatial autocorrelation function can be used to physically capture the net effects of subgrid cloud interaction with radiation. The new approach is able to faithfully reproduce the Monte Carlo 3D simulation results with several orders less computational cost,more » allowing for more realistic representation of cloud radiation interactions in large-scale models.« less

Imperfection sensitivity of pressured buckling of biopolymer spherical shells

NASA Astrophysics Data System (ADS)

Zhang, Lei; Ru, C. Q.

2016-06-01

Imperfection sensitivity is essential for mechanical behavior of biopolymer shells [such as ultrasound contrast agents (UCAs) and spherical viruses] characterized by high geometric heterogeneity. In this work, an imperfection sensitivity analysis is conducted based on a refined shell model recently developed for spherical biopolymer shells of high structural heterogeneity and thickness nonuniformity. The influence of related parameters (including the ratio of radius to average shell thickness, the ratio of transverse shear modulus to in-plane shear modulus, and the ratio of effective bending thickness to average shell thickness) on imperfection sensitivity is examined for pressured buckling. Our results show that the ratio of effective bending thickness to average shell thickness has a major effect on the imperfection sensitivity, while the effect of the ratio of transverse shear modulus to in-plane shear modulus is usually negligible. For example, with physically realistic parameters for typical imperfect spherical biopolymer shells, the present model predicts that actual maximum external pressure could be reduced to as low as 60% of that of a perfect UCA spherical shell or 55%-65% of that of a perfect spherical virus shell, respectively. The moderate imperfection sensitivity of spherical biopolymer shells with physically realistic imperfection is largely attributed to the fact that biopolymer shells are relatively thicker (defined by smaller radius-to-thickness ratio) and therefore practically realistic imperfection amplitude normalized by thickness is very small as compared to that of classical elastic thin shells which have much larger radius-to-thickness ratio.

A Linear Stochastic Dynamical Model of ENSO. Part II: Analysis.

NASA Astrophysics Data System (ADS)

Thompson, C. J.; Battisti, D. S.

2001-02-01

In this study the behavior of a linear, intermediate model of ENSO is examined under stochastic forcing. The model was developed in a companion paper (Part I) and is derived from the Zebiak-Cane ENSO model. Four variants of the model are used whose stabilities range from slightly damped to moderately damped. Each model is run as a simulation while being perturbed by noise that is uncorrelated (white) in space and time. The statistics of the model output show the moderately damped models to be more realistic than the slightly damped models. The moderately damped models have power spectra that are quantitatively quite similar to observations, and a seasonal pattern of variance that is qualitatively similar to observations. All models produce ENSOs that are phase locked to the annual cycle, and all display the `spring barrier' characteristic in their autocorrelation patterns, though in the models this `barrier' occurs during the summer and is less intense than in the observations (inclusion of nonlinear effects is shown to partially remedy this deficiency). The more realistic models also show a decadal variability in the lagged autocorrelation pattern that is qualitatively similar to observations.Analysis of the models shows that the greatest part of the variability comes from perturbations that project onto the first singular vector, which then grow rapidly into the ENSO mode. Essentially, the model output represents many instances of the ENSO mode, with random phase and amplitude, stimulated by the noise through the optimal transient growth of the singular vectors.The limit of predictability for each model is calculated and it is shown that the more realistic (moderately damped) models have worse potential predictability (9-15 months) than the deterministic chaotic models that have been studied widely in the literature. The predictability limits are strongly correlated with the stability of the models' ENSO mode-the more highly damped models having much shorter limits of predictability. A comparison of the two most realistic models shows that even though these models have similar statistics, they have very different predictability limits. The models have a strong seasonal dependence to their predictability limits.The results of this study (with the companion paper) suggest that the linear, stable dynamical model of ENSO is indeed a plausible hypothesis for the observed ENSO. With very reasonable levels of stochastic forcing, the model produces realistic levels of variance, has a realistic spectrum, and qualitatively reproduces the observed seasonal pattern of variance, the autocorrelation pattern, and the ENSO-like decadal variability.

High-fidelity simulation capability for virtual testing of seismic and acoustic sensors

NASA Astrophysics Data System (ADS)

Wilson, D. Keith; Moran, Mark L.; Ketcham, Stephen A.; Lacombe, James; Anderson, Thomas S.; Symons, Neill P.; Aldridge, David F.; Marlin, David H.; Collier, Sandra L.; Ostashev, Vladimir E.

2005-05-01

This paper describes development and application of a high-fidelity, seismic/acoustic simulation capability for battlefield sensors. The purpose is to provide simulated sensor data so realistic that they cannot be distinguished by experts from actual field data. This emerging capability provides rapid, low-cost trade studies of unattended ground sensor network configurations, data processing and fusion strategies, and signatures emitted by prototype vehicles. There are three essential components to the modeling: (1) detailed mechanical signature models for vehicles and walkers, (2) high-resolution characterization of the subsurface and atmospheric environments, and (3) state-of-the-art seismic/acoustic models for propagating moving-vehicle signatures through realistic, complex environments. With regard to the first of these components, dynamic models of wheeled and tracked vehicles have been developed to generate ground force inputs to seismic propagation models. Vehicle models range from simple, 2D representations to highly detailed, 3D representations of entire linked-track suspension systems. Similarly detailed models of acoustic emissions from vehicle engines are under development. The propagation calculations for both the seismics and acoustics are based on finite-difference, time-domain (FDTD) methodologies capable of handling complex environmental features such as heterogeneous geologies, urban structures, surface vegetation, and dynamic atmospheric turbulence. Any number of dynamic sources and virtual sensors may be incorporated into the FDTD model. The computational demands of 3D FDTD simulation over tactical distances require massively parallel computers. Several example calculations of seismic/acoustic wave propagation through complex atmospheric and terrain environments are shown.

High-resolution simulations of multi-phase flow in magmatic-hydrothermal systems with realistic fluid properties

NASA Astrophysics Data System (ADS)

Geiger, S.; Driesner, T.; Matthai, S.; Heinrich, C.

2002-12-01

Realistic modelling of multi-phase fluid flow, energy and component transport in magmatic-hydrothermal systems is very challenging because hydrological properties of fluids and rocks vary over many orders of magnitude and the geometric complexities of such systems. Furthermore, density dependent component transport and transient permeability variations due to P-T changes and fluid-rock interactions introduce additional difficulties. As a result, the governing equations for the hydrodynamics, energy and component transport, and thermodynamics in magmatic hydrothermal systems are highly non-linear and strongly coupled. Essential requirements of a numerical formulation for such a system are: (1) a treatment of the hydrodynamics that can accurately resolve complex geological structures and represent the highly variable fluid velocities herein, (2) a realistic thermodynamic representation of the fluid properties including the wide P-T-X range of liquid+vapour coexistence for the highly saline fluids, and (3) an accurate handling of the highly contrasting transport properties of the two fluids. We are combining higher order finite-element (FE) methods with total variation diminishing finite volume (TVDFV) methods to model the hydrodynamics and energy and component transport of magmatic hydrothermal systems. Combined FE and TVDFV methods are mass and shock preserving, yield great geometric flexibility in 2D and 3D [2]. Furthermore, efficient matrix solvers can be employed to model fluid flow in geologically realistic structures [5]. The governing equations are linearized by operator-splitting and solved sequentially using a Picard iteration scheme. We chose the system water-NaCl as a realistic proxy for natural fluids occurring in magmatic-hydrothermal systems. An in-depth evaluation of the available experimental and theoretical data led to a consistent and accurate set of formulations for the PVTXH relations that are valid from 0 to 800 C, 0 to 500 MPa, and 0 to 1 XNaCl. Dynamic viscosities are currently approximated by the approach of Palliser and McKibbin [4]. The numerical solutions of the governing equations and the equation of state are embedded in our object-oriented C++ code CSP3D4.0 [6]. Comparisons of the numerical solutions carried out with CSP for solute transport with analytical solutions and classical test cases for density dependent flow (i.e., Elder problem [1]) show very good agreement. The numerical solutions carried out with CSP and the established United States Geological Survey code HYDROTHERM [3] for multi-phase flow and energy transport also yield a very good agreement. Fluid inclusion data can be used to constrain the PTX properties of the hydrothermal fluids in numerical solutions. [1] Journal of Fluid Mechanics 27, 609-623 [2] ANU Mathematical Research Report, MRR01-023 [3] USGS Water Investigations Report 94-4045 [4] Transport in Porous Media 33, 155-171 [5] AAPG Bulletin 80, 1763-1779 [6] CSP User's Guide, Dept. of Earth Sciences ETH Zurich

RainyDay: An Online, Open-Source Tool for Physically-based Rainfall and Flood Frequency Analysis

NASA Astrophysics Data System (ADS)

Wright, D.; Yu, G.; Holman, K. D.

2017-12-01

Flood frequency analysis in ungaged or changing watersheds typically requires rainfall intensity-duration-frequency (IDF) curves combined with hydrologic models. IDF curves only depict point-scale rainfall depth, while true rainstorms exhibit complex spatial and temporal structures. Floods result from these rainfall structures interacting with watershed features such as land cover, soils, and variable antecedent conditions as well as river channel processes. Thus, IDF curves are traditionally combined with a variety of "design storm" assumptions such as area reduction factors and idealized rainfall space-time distributions to translate rainfall depths into inputs that are suitable for flood hydrologic modeling. The impacts of such assumptions are relatively poorly understood. Meanwhile, modern precipitation estimates from gridded weather radar, grid-interpolated rain gages, satellites, and numerical weather models provide more realistic depictions of rainfall space-time structure. Usage of such datasets for rainfall and flood frequency analysis, however, are hindered by relatively short record lengths. We present RainyDay, an open-source stochastic storm transposition (SST) framework for generating large numbers of realistic rainfall "scenarios." SST "lengthens" the rainfall record by temporal resampling and geospatial transposition of observed storms to extract space-time information from regional gridded rainfall data. Relatively short (10-15 year) records of bias-corrected radar rainfall data are sufficient to estimate rainfall and flood events with much longer recurrence intervals including 100-year and 500-year events. We describe the SST methodology as implemented in RainyDay and compare rainfall IDF results from RainyDay to conventional estimates from NOAA Atlas 14. Then, we demonstrate some of the flood frequency analysis properties that are possible when RainyDay is integrated with a distributed hydrologic model, including robust estimation of flood hazards in a changing watershed. The U.S. Bureau of Reclamation is supporting the development of a web-based variant of RainyDay, a "beta" version of which is available at http://her.cee.wisc.edu/projects/rainyday/.

Effectiveness of combination packages for HIV-1 prevention in sub-Saharan Africa depends on partnership network structure: a mathematical modelling study.

PubMed

Jenness, Samuel M; Goodreau, Steven M; Morris, Martina; Cassels, Susan

2016-12-01

Combination packages for HIV prevention can leverage the effectiveness of biomedical and behavioural elements to lower disease incidence with realistic targets for individual and population risk reduction. We investigated how sexual network structures can maximise the effectiveness of a package targeting sexually active adults in sub-Saharan Africa (SSA) with intervention components for medical male circumcision (MMC) and sexual partnership concurrency (having >1 ongoing partner). Network-based mathematical models of HIV type 1 (HIV-1) transmission dynamics among heterosexual couples were used to explore how changes to MMC alone and in combination with changes to concurrency impacted endemic HIV-1 prevalence and incidence. Starting from a base model parameterised from empirical data from West Africa, we simulated the prevalence of circumcision from 10% to 90% and concurrency was modelled at four discrete levels corresponding to values observed across SSA. MMC and concurrency could contribute to the empirical variation in HIV-1 disease prevalence across SSA. Small reductions in concurrency resulted in large declines in HIV-1 prevalence. Scaling up circumcision in low-concurrency settings yields a greater relative benefit, but the absolute number of infections averted depends on both the circumcision coverage and baseline incidence. Epidemic extinction with this package will require substantial scale-up of MMC in low-concurrency settings. Dynamic sexual network structure should be considered in the design and targeting of MMC within combination HIV-1 prevention packages. Realistic levels of coverage for these packages within southern Africa could lead to a reduction of incidence to the low levels observed in western Africa, and possibly, epidemic extinction. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/.

Three-dimensional elastic-plastic finite-element analysis of fatigue crack propagation

NASA Technical Reports Server (NTRS)

Goglia, G. L.; Chermahini, R. G.

1985-01-01

Fatigue cracks are a major problem in designing structures subjected to cyclic loading. Cracks frequently occur in structures such as aircraft and spacecraft. The inspection intervals of many aircraft structures are based on crack-propagation lives. Therefore, improved prediction of propagation lives under flight-load conditions (variable-amplitude loading) are needed to provide more realistic design criteria for these structures. The main thrust was to develop a three-dimensional, nonlinear, elastic-plastic, finite element program capable of extending a crack and changing boundary conditions for the model under consideration. The finite-element model is composed of 8-noded (linear-strain) isoparametric elements. In the analysis, the material is assumed to be elastic-perfectly plastic. The cycle stress-strain curve for the material is shown Zienkiewicz's initial-stress method, von Mises's yield criterion, and Drucker's normality condition under small-strain assumptions are used to account for plasticity. The three-dimensional analysis is capable of extending the crack and changing boundary conditions under cyclic loading.

Challenges in Integrating Nondestructive Evaluation and Finite Element Methods for Realistic Structural Analysis

NASA Technical Reports Server (NTRS)

Abdul-Aziz, Ali; Baaklini, George Y.; Zagidulin, Dmitri; Rauser, Richard W.

2000-01-01

Capabilities and expertise related to the development of links between nondestructive evaluation (NDE) and finite element analysis (FEA) at Glenn Research Center (GRC) are demonstrated. Current tools to analyze data produced by computed tomography (CT) scans are exercised to help assess the damage state in high temperature structural composite materials. A utility translator was written to convert velocity (an image processing software) STL data file to a suitable CAD-FEA type file. Finite element analyses are carried out with MARC, a commercial nonlinear finite element code, and the analytical results are discussed. Modeling was established by building MSC/Patran (a pre and post processing finite element package) generated model and comparing it to a model generated by Velocity in conjunction with MSC/Patran Graphics. Modeling issues and results are discussed in this paper. The entire process that outlines the tie between the data extracted via NDE and the finite element modeling and analysis is fully described.

A generic framework to simulate realistic lung, liver and renal pathologies in CT imaging

NASA Astrophysics Data System (ADS)

Solomon, Justin; Samei, Ehsan

2014-11-01

Realistic three-dimensional (3D) mathematical models of subtle lesions are essential for many computed tomography (CT) studies focused on performance evaluation and optimization. In this paper, we develop a generic mathematical framework that describes the 3D size, shape, contrast, and contrast-profile characteristics of a lesion, as well as a method to create lesion models based on CT data of real lesions. Further, we implemented a technique to insert the lesion models into CT images in order to create hybrid CT datasets. This framework was used to create a library of realistic lesion models and corresponding hybrid CT images. The goodness of fit of the models was assessed using the coefficient of determination (R2) and the visual appearance of the hybrid images was assessed with an observer study using images of both real and simulated lesions and receiver operator characteristic (ROC) analysis. The average R2 of the lesion models was 0.80, implying that the models provide a good fit to real lesion data. The area under the ROC curve was 0.55, implying that the observers could not readily distinguish between real and simulated lesions. Therefore, we conclude that the lesion-modeling framework presented in this paper can be used to create realistic lesion models and hybrid CT images. These models could be instrumental in performance evaluation and optimization of novel CT systems.

Three-dimensional radiation transfer modeling in a dicotyledon leaf

NASA Astrophysics Data System (ADS)

Govaerts, Yves M.; Jacquemoud, Stéphane; Verstraete, Michel M.; Ustin, Susan L.

1996-11-01

The propagation of light in a typical dicotyledon leaf is investigated with a new Monte Carlo ray-tracing model. The three-dimensional internal cellular structure of the various leaf tissues, including the epidermis, the palisade parenchyma, and the spongy mesophyll, is explicitly described. Cells of different tissues are assigned appropriate morphologies and contain realistic amounts of water and chlorophyll. Each cell constituent is characterized by an index of refraction and an absorption coefficient. The objective of this study is to investigate how the internal three-dimensional structure of the tissues and the optical properties of cell constituents control the reflectance and transmittance of the leaf. Model results compare favorably with laboratory observations. The influence of the roughness of the epidermis on the reflection and absorption of light is investigated, and simulation results confirm that convex cells in the epidermis focus light on the palisade parenchyma and increase the absorption of radiation.

Revisiting the NVSS number count dipole

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

Tiwari, Prabhakar; Nusser, Adi, E-mail: ptiwari@physics.technion.ac.il, E-mail: adi@physics.technion.ac.il

We present a realistic modeling of the dipole component of the projected sky distribution of NVSS radio galaxies. The modeling relies on mock catalogs generated within the context of ΛCDM cosmology, in the linear regime of structure formation. After removing the contribution from the solar motion, the mocks show that the remaining observed signal is mostly (70%) due to structures within z ∼< 0.1. The amplitude of the model signal depends on the bias factor b of the NVSS mock galaxies. For sources with flux density, S > 15 mJy, the bias recipe inferred from higher order moments is consistent with the observed dipole signalmore » at 2.12σ. Flux thresholds above 20 mJy yield a disagreement close to the 3σ level. A constant high bias, b = 3 is needed to mitigate the tension to the ∼ 2.3σ level.« less

Nuclear surface diffuseness revealed in nucleon-nucleus diffraction

NASA Astrophysics Data System (ADS)

Hatakeyama, S.; Horiuchi, W.; Kohama, A.

2018-05-01

The nuclear surface provides useful information on nuclear radius, nuclear structure, as well as properties of nuclear matter. We discuss the relationship between the nuclear surface diffuseness and elastic scattering differential cross section at the first diffraction peak of high-energy nucleon-nucleus scattering as an efficient tool in order to extract the nuclear surface information from limited experimental data involving short-lived unstable nuclei. The high-energy reaction is described by a reliable microscopic reaction theory, the Glauber model. Extending the idea of the black sphere model, we find one-to-one correspondence between the nuclear bulk structure information and proton-nucleus elastic scattering diffraction peak. This implies that we can extract both the nuclear radius and diffuseness simultaneously, using the position of the first diffraction peak and its magnitude of the elastic scattering differential cross section. We confirm the reliability of this approach by using realistic density distributions obtained by a mean-field model.

Influence of internal channel geometry of gas turbine blade on flow structure and heat transfer

NASA Astrophysics Data System (ADS)

Szwaba, Ryszard; Kaczynski, Piotr; Telega, Janusz; Doerffer, Piotr

2017-12-01

This paper presents the study of the influence of channel geometry on the flow structure and heat transfer, and also their correlations on all the walls of a radial cooling passage model of a gas turbine blade. The investigations focus on the heat transfer and aerodynamic measurements in the channel, which is an accurate representation of the configuration used in aeroengines. Correlations for the heat transfer coefficient and the pressure drop used in the design of internal cooling passages are often developed from simplified models. It is important to note that real engine passages do not have perfect rectangular cross sections, but include a corner fillets, ribs with fillet radii and a special orientation. Therefore, this work provides detailed fluid flow and heat transfer data for a model of radial cooling geometry which has very realistic features.

Efficient Lane Boundary Detection with Spatial-Temporal Knowledge Filtering

PubMed Central

Nan, Zhixiong; Wei, Ping; Xu, Linhai; Zheng, Nanning

2016-01-01

Lane boundary detection technology has progressed rapidly over the past few decades. However, many challenges that often lead to lane detection unavailability remain to be solved. In this paper, we propose a spatial-temporal knowledge filtering model to detect lane boundaries in videos. To address the challenges of structure variation, large noise and complex illumination, this model incorporates prior spatial-temporal knowledge with lane appearance features to jointly identify lane boundaries. The model first extracts line segments in video frames. Two novel filters—the Crossing Point Filter (CPF) and the Structure Triangle Filter (STF)—are proposed to filter out the noisy line segments. The two filters introduce spatial structure constraints and temporal location constraints into lane detection, which represent the spatial-temporal knowledge about lanes. A straight line or curve model determined by a state machine is used to fit the line segments to finally output the lane boundaries. We collected a challenging realistic traffic scene dataset. The experimental results on this dataset and other standard dataset demonstrate the strength of our method. The proposed method has been successfully applied to our autonomous experimental vehicle. PMID:27529248

A Fatigue Crack Size Evaluation Method Based on Lamb Wave Simulation and Limited Experimental Data

PubMed Central

He, Jingjing; Ran, Yunmeng; Liu, Bin; Yang, Jinsong; Guan, Xuefei

2017-01-01

This paper presents a systematic and general method for Lamb wave-based crack size quantification using finite element simulations and Bayesian updating. The method consists of construction of a baseline quantification model using finite element simulation data and Bayesian updating with limited Lamb wave data from target structure. The baseline model correlates two proposed damage sensitive features, namely the normalized amplitude and phase change, with the crack length through a response surface model. The two damage sensitive features are extracted from the first received S0 mode wave package. The model parameters of the baseline model are estimated using finite element simulation data. To account for uncertainties from numerical modeling, geometry, material and manufacturing between the baseline model and the target model, Bayesian method is employed to update the baseline model with a few measurements acquired from the actual target structure. A rigorous validation is made using in-situ fatigue testing and Lamb wave data from coupon specimens and realistic lap-joint components. The effectiveness and accuracy of the proposed method is demonstrated under different loading and damage conditions. PMID:28902148

Wind Farm LES Simulations Using an Overset Methodology

NASA Astrophysics Data System (ADS)

Ananthan, Shreyas; Yellapantula, Shashank

2017-11-01

Accurate simulation of wind farm wakes under realistic atmospheric inflow conditions and complex terrain requires modeling a wide range of length and time scales. The computational domain can span several kilometers while requiring mesh resolutions in O(10-6) to adequately resolve the boundary layer on the blade surface. Overset mesh methodology offers an attractive option to address the disparate range of length scales; it allows embedding body-confirming meshes around turbine geomtries within nested wake capturing meshes of varying resolutions necessary to accurately model the inflow turbulence and the resulting wake structures. Dynamic overset hole-cutting algorithms permit relative mesh motion that allow this nested mesh structure to track unsteady inflow direction changes, turbine control changes (yaw and pitch), and wake propagation. An LES model with overset mesh for localized mesh refinement is used to analyze wind farm wakes and performance and compared with local mesh refinements using non-conformal (hanging node) unstructured meshes. Turbine structures will be modeled using both actuator line approaches and fully-resolved structures to test the efficacy of overset methods for wind farm applications. Exascale Computing Project (ECP), Project Number: 17-SC-20-SC, a collaborative effort of two DOE organizations - the Office of Science and the National Nuclear Security Administration.

Origin of the biomechanical properties of wood related to the fine structure of the multi-layered cell wall.

PubMed

Yamamoto, H; Kojima, Y; Okuyama, T; Abasolo, W P; Gril, J

2002-08-01

In this study, a basic model is introduced to describe the biomechanical properties of the wood from the viewpoint of the composite structure of its cell wall. First, the mechanical interaction between the cellulose microfibril (CMF) as a bundle framework and the lignin-hemicellulose as a matrix (MT) skeleton in the secondary wall is formulated based on "the two phase approximation." Thereafter, the origins of (1) tree growth stress, (2) shrinkage or swelling anisotropy of the wood, and (3) moisture dependency of the Young's modulus of wood along the grain were simulated using the newly introduced model. Through the model formulation; (1) the behavior of the cellulose microfibril (CMF) and the matrix substance (MT) during cell wall maturation was estimated; (2) the moisture reactivity of each cell wall constituent was investigated; and (3) a realistic model of the fine composite structure of the matured cell wall was proposed. Thus, it is expected that the fine structure and internal property of each cell wall constituent can be estimated through the analyses of the macroscopic behaviors of wood based on the two phase approximation.

Growth and structure of the World Wide Web: Towards realistic modeling

NASA Astrophysics Data System (ADS)

Tadić, Bosiljka

2002-08-01

We simulate evolution of the World Wide Web from the dynamic rules incorporating growth, bias attachment, and rewiring. We show that the emergent double-hierarchical structure with distinct distributions of out- and in-links is comparable with the observed empirical data when the control parameter (average graph flexibility β) is kept in the range β=3-4. We then explore the Web graph by simulating (a) Web crawling to determine size and depth of connected components, and (b) a random walker that discovers the structure of connected subgraphs with dominant attractor and promoter nodes. A random walker that adapts its move strategy to mimic local node linking preferences is shown to have a short access time to "important" nodes on the Web graph.

Molecular Dynamics Simulation of the Structure and Ion Transport in the Ce1 - x Gd x O2 - δ|YSZ Heterosystem

NASA Astrophysics Data System (ADS)

Galin, M. Z.; Ivanov-Schitz, A. K.; Mazo, G. N.

2018-01-01

Molecular dynamics simulation has been used to develop a realistic atomistic model of two-layer Ce1 - x Gd x O2 - δ|YSZ heterosystem. It is shown that Ce1 - x Gd x O2 - δ and YSZ layers (about 15 and 16 Å thick, respectively) retain their crystal structure on the whole. The main structural distortions are found to occur near the Ce1 - x Gd x O2 - δ|YSZ geometric interface, within a narrow interfacial region of few angstroms thick. Both the generalized diffusion characteristics of the system as a whole and the oxygen diffusion coefficients in the layers are calculated, and the diffusion activation energies are determined.

Dynamics of entanglement and uncertainty relation in coupled harmonic oscillator system: exact results

NASA Astrophysics Data System (ADS)

Park, DaeKil

2018-06-01

The dynamics of entanglement and uncertainty relation is explored by solving the time-dependent Schrödinger equation for coupled harmonic oscillator system analytically when the angular frequencies and coupling constant are arbitrarily time dependent. We derive the spectral and Schmidt decompositions for vacuum solution. Using the decompositions, we derive the analytical expressions for von Neumann and Rényi entropies. Making use of Wigner distribution function defined in phase space, we derive the time dependence of position-momentum uncertainty relations. To show the dynamics of entanglement and uncertainty relation graphically, we introduce two toy models and one realistic quenched model. While the dynamics can be conjectured by simple consideration in the toy models, the dynamics in the realistic quenched model is somewhat different from that in the toy models. In particular, the dynamics of entanglement exhibits similar pattern to dynamics of uncertainty parameter in the realistic quenched model.

Exploiting Textured 3D Models for Developing Serious Games

NASA Astrophysics Data System (ADS)

Kontogianni, G.; Georgopoulos, A.

2015-08-01

Digital technologies have affected significantly many fields of computer graphics such as Games and especially the field of the Serious Games. These games are usually used for educational proposes in many fields such as Health Care, Military applications, Education, Government etc. Especially Digital Cultural Heritage is a scientific area that Serious Games are applied and lately many applications appear in the related literature. Realistic 3D textured models which have been produced using different photogrammetric methods could be a useful tool for the creation of Serious Game applications in order to make the final result more realistic and close to the reality. The basic goal of this paper is how 3D textured models which are produced by photogrammetric methods can be useful for developing a more realistic environment of a Serious Game. The application of this project aims at the creation of an educational game for the Ancient Agora of Athens. The 3D models used vary not only as far as their production methods (i.e. Time of Flight laser scanner, Structure from Motion, Virtual historical reconstruction etc.) is concerned, but also as far as their era as some of them illustrated according to their existing situation and some others according to how these monuments looked like in the past. The Unity 3D® game developing environment was used for creating this application, in which all these models were inserted in the same file format. For the application two diachronic virtual tours of the Athenian Agora were produced. The first one illustrates the Agora as it is today and the second one at the 2nd century A.D. Finally the future perspective for the evolution of this game is presented which includes the addition of some questions that the user will be able to answer. Finally an evaluation is scheduled to be performed at the end of the project.

Georgia Tech Vertical Lift Research Center of Excellence

DTIC Science & Technology

2017-12-14

Technical Project Summaries Task 1.1 (GT-1): Next Generation VABS for More Realistic Modeling of Composite Blades ...Methodology for the Prediction of Rotor Blade Ice Formation and Shedding ..................................................................... 20...software disclosures and technology transfer efforts. Task 1.1 (GT-1): Next Generation VABS for More Realistic Modeling of Composite Blades PIs

Realistic simplified gaugino-higgsino models in the MSSM

NASA Astrophysics Data System (ADS)

Fuks, Benjamin; Klasen, Michael; Schmiemann, Saskia; Sunder, Marthijn

2018-03-01

We present simplified MSSM models for light neutralinos and charginos with realistic mass spectra and realistic gaugino-higgsino mixing, that can be used in experimental searches at the LHC. The formerly used naive approach of defining mass spectra and mixing matrix elements manually and independently of each other does not yield genuine MSSM benchmarks. We suggest the use of less simplified, but realistic MSSM models, whose mass spectra and mixing matrix elements are the result of a proper matrix diagonalisation. We propose a novel strategy targeting the design of such benchmark scenarios, accounting for user-defined constraints in terms of masses and particle mixing. We apply it to the higgsino case and implement a scan in the four relevant underlying parameters {μ , tan β , M1, M2} for a given set of light neutralino and chargino masses. We define a measure for the quality of the obtained benchmarks, that also includes criteria to assess the higgsino content of the resulting charginos and neutralinos. We finally discuss the distribution of the resulting models in the MSSM parameter space as well as their implications for supersymmetric dark matter phenomenology.

Analysis of the Impact of Realistic Wind Size Parameter on the Delft3D Model

NASA Astrophysics Data System (ADS)

Washington, M. H.; Kumar, S.

2017-12-01

The wind size parameter, which is the distance from the center of the storm to the location of the maximum winds, is currently a constant in the Delft3D model. As a result, the Delft3D model's output prediction of the water levels during a storm surge are inaccurate compared to the observed data. To address these issues, an algorithm to calculate a realistic wind size parameter for a given hurricane was designed and implemented using the observed water-level data for Hurricane Matthew. A performance evaluation experiment was conducted to demonstrate the accuracy of the model's prediction of water levels using the realistic wind size input parameter compared to the default constant wind size parameter for Hurricane Matthew, with the water level data observed from October 4th, 2016 to October 9th, 2016 from National Oceanic and Atmospheric Administration (NOAA) as a baseline. The experimental results demonstrate that the Delft3D water level output for the realistic wind size parameter, compared to the default constant size parameter, matches more accurately with the NOAA reference water level data.

SPH simulations of WBC adhesion to the endothelium: the role of haemodynamics and endothelial binding kinetics.

PubMed

Gholami, Babak; Comerford, Andrew; Ellero, Marco

2015-11-01

A multiscale Lagrangian particle solver introduced in our previous work is extended to model physiologically realistic near-wall cell dynamics. Three-dimensional simulation of particle trajectories is combined with realistic receptor-ligand adhesion behaviour to cover full cell interactions in the vicinity of the endothelium. The selected stochastic adhesion model, which is based on a Monte Carlo acceptance-rejection method, fits in our Lagrangian framework and does not compromise performance. Additionally, appropriate inflow/outflow boundary conditions are implemented for our SPH solver to enable realistic pulsatile flow simulation. The model is tested against in-vitro data from a 3D geometry with a stenosis and sudden expansion. In both steady and pulsatile flow conditions, results show close agreement with the experimental ones. Furthermore we demonstrate, in agreement with experimental observations, that haemodynamics alone does not account for adhesion of white blood cells, in this case U937 monocytic human cells. Our findings suggest that the current framework is fully capable of modelling cell dynamics in large arteries in a realistic and efficient manner.

Magnetic-field enhancement beyond the skin-depth limit

NASA Astrophysics Data System (ADS)

Shin, Jonghwa; Park, Namkyoo; Fan, Shanhui; Lee, Yong-Hee

2010-02-01

Electric field enhancement has been actively studied recently and many metallic structures that are capable of locally enhancing electric field have been reported. The Babinet's principle can be utilized, especially in the form of Booker's extension, to transform the known electric field enhancing structures into magnetic field enhancing structures. The authors explain this transformation process and discuss the regime in which this principle breaks down. Unless the metals used can be well approximated with a PEC model, the principle's predictions fails to hold true. Authors confirm this aspect using numerical simulations based on realistic material parameters for actual metals. There is large discrepancy especially when the structural dimensions are comparable or less than the skin-depth at the wavelength of interest. An alternative way to achieve magnetic field enhancement is presented and the design of a connected bow-tie structure is proposed as an example. FDTD simulation results confirm the operation of the proposed structure.

A Bayesian state-space approach for damage detection and classification

NASA Astrophysics Data System (ADS)

Dzunic, Zoran; Chen, Justin G.; Mobahi, Hossein; Büyüköztürk, Oral; Fisher, John W.

2017-11-01

The problem of automatic damage detection in civil structures is complex and requires a system that can interpret collected sensor data into meaningful information. We apply our recently developed switching Bayesian model for dependency analysis to the problems of damage detection and classification. The model relies on a state-space approach that accounts for noisy measurement processes and missing data, which also infers the statistical temporal dependency between measurement locations signifying the potential flow of information within the structure. A Gibbs sampling algorithm is used to simultaneously infer the latent states, parameters of the state dynamics, the dependence graph, and any changes in behavior. By employing a fully Bayesian approach, we are able to characterize uncertainty in these variables via their posterior distribution and provide probabilistic estimates of the occurrence of damage or a specific damage scenario. We also implement a single class classification method which is more realistic for most real world situations where training data for a damaged structure is not available. We demonstrate the methodology with experimental test data from a laboratory model structure and accelerometer data from a real world structure during different environmental and excitation conditions.

Oceanography and life history predict contrasting genetic population structure in two Antarctic fish species.

PubMed

Young, Emma F; Belchier, Mark; Hauser, Lorenz; Horsburgh, Gavin J; Meredith, Michael P; Murphy, Eugene J; Pascoal, Sonia; Rock, Jennifer; Tysklind, Niklas; Carvalho, Gary R

2015-06-01

Understanding the key drivers of population connectivity in the marine environment is essential for the effective management of natural resources. Although several different approaches to evaluating connectivity have been used, they are rarely integrated quantitatively. Here, we use a 'seascape genetics' approach, by combining oceanographic modelling and microsatellite analyses, to understand the dominant influences on the population genetic structure of two Antarctic fishes with contrasting life histories, Champsocephalus gunnari and Notothenia rossii. The close accord between the model projections and empirical genetic structure demonstrated that passive dispersal during the planktonic early life stages is the dominant influence on patterns and extent of genetic structuring in both species. The shorter planktonic phase of C. gunnari restricts direct transport of larvae between distant populations, leading to stronger regional differentiation. By contrast, geographic distance did not affect differentiation in N. rossii, whose longer larval period promotes long-distance dispersal. Interannual variability in oceanographic flows strongly influenced the projected genetic structure, suggesting that shifts in circulation patterns due to climate change are likely to impact future genetic connectivity and opportunities for local adaptation, resilience and recovery from perturbations. Further development of realistic climate models is required to fully assess such potential impacts.

Using seismic coda waves to resolve intrinsic and scattering attenuation

NASA Astrophysics Data System (ADS)

Wang, W.; Shearer, P. M.

2016-12-01

Seismic attenuation is caused by two factors, scattering and intrinsic absorption. Characterizing scattering and absorbing properties and the power spectrum of crustal heterogeneity is a fundamental problem for informing strong ground motion estimates at high frequencies, where scattering and attenuation effects are critical. Determining the relative amount of attenuation caused by scattering and intrinsic absorption has been a long-standing problem in seismology. The wavetrain following the direct body wave phases is called the coda, which is caused by scattered energy. Many studies have analyzed the coda of local events to constrain crustal and upper-mantle scattering strength and intrinsic attenuation. Here we examine two popular attenuation inversion methods, the Multiple Lapse Time Window Method (MLTWM) and the Coda Qc Method. First, based on our previous work on California attenuation structure, we apply an efficient and accurate method, the Monte Carlo Approach, to synthesize seismic envelope functions. We use this code to generate a series of synthetic data based on several complex and realistic forward models. Although the MLTWM assumes a uniform whole space, we use the MLTWM to invert for both scattering and intrinsic attenuation from the synthetic data to test how accurately it can recover the attenuation models. Results for the coda Qc method depend on choices for the length and starting time of the coda-wave time window. Here we explore the relation between the inversion results for Qc, the windowing parameters, and the intrinsic and scattering Q structure of our synthetic model. These results should help assess the practicality and accuracy of the Multiple Lapse Time Window Method and Coda Qc Method when applied to realistic crustal velocity and attenuation models.

Unsteady Flow in Different Atmospheric Boundary Layer Regimes and Its Impact on Wind-Turbine Performance

NASA Astrophysics Data System (ADS)

Gohari, Iman; Korobenko, Artem; Yan, Jinhui; Bazilevs, Yuri; Sarkar, Sutanu

2016-11-01

Wind is a renewable energy resource that offers several advantages including low pollutant emission and inexpensive construction. Wind turbines operate in conditions dictated by the Atmospheric Boundary Layer (ABL) and that motivates the study of coupling ABL simulations with wind turbine dynamics. The ABL simulations can be used for realistic modeling of the environment which, with the use of fluid-structure interaction, can give realistic predictions of extracted power, rotor loading, and blade structural response. The ABL simulations provide inflow boundary conditions to the wind-turbine simulator which uses arbitrary Lagrangian-Eulerian variational multiscale formulation. In the present work, ABL simulations are performed to examine two different scenarios: (i) A neutral ABL with zero heat-flux and inversion layer at 350m, in which the wind turbine experiences maximum mean shear; (2) A shallow ABL with the surface cooling-rate of -1 K/hr, in which the wind turbine experiences maximum mean velocity at the low-level-jet nose height. We will discuss differences in the unsteady flow between the two different ABL conditions and their impact on the performance of the wind turbine cluster in the coupled ABL-wind turbine simulations.

Analysis of Students' Aptitude to Provide Meaning to Images that Represent Cellular Components at the Molecular Level

ERIC Educational Resources Information Center

Dahmani, Hassen-Reda; Schneeberger, Patricia; Kramer, IJsbrand M.

2009-01-01

The number of experimentally derived structures of cellular components is rapidly expanding, and this phenomenon is accompanied by the development of a new semiotic system for teaching. The infographic approach is shifting from a schematic toward a more realistic representation of cellular components. By realistic we mean artist-prepared or…

PICUS v1.6 - enhancing the water cycle within a hybrid ecosystem model to assess the provision of drinking water in a changing climate

NASA Astrophysics Data System (ADS)

Schimmel, A.; Rammer, W.; Lexer, M. J.

2012-04-01

The PICUS model is a hybrid ecosystem model which is based on a 3D patch model and a physiological stand level production model. The model includes, among others, a submodel of bark beetle disturbances in Norway spruce and a management module allowing any silvicultural treatment to be mimicked realistically. It has been tested intensively for its ability to realistically reproduce tree growth and stand dynamics in complex structured mixed and mono-species temperate forest ecosystems. In several applications the models capacity to generate relevant forest related attributes which were subsequently fed into indicator systems to assess sustainable forest management under current and future climatic conditions has been proven. However, the relatively coarse monthly temporal resolution of the driving climate data as well as the process resolution of the major water relations within the simulated ecosystem hampered the inclusion of more detailed physiologically based assessments of drought conditions and water provisioning ecosystem services. In this contribution we present the improved model version PICUS v1.6 focusing on the newly implemented logic for the water cycle calculations. Transpiration, evaporation from leave surfaces and the forest floor, snow cover and snow melt as well as soil water dynamics in several soil horizons are covered. In enhancing the model overarching goal was to retain the large-scale applicability by keeping the input requirements to a minimum while improving the physiological foundation of water related ecosystem processes. The new model version is tested against empirical time series data. Future model applications are outlined.

Testing the Simple Biosphere model (SiB) using point micrometeorological and biophysical data

NASA Technical Reports Server (NTRS)

Sellers, P. J.; Dorman, J. L.

1987-01-01

The suitability of the Simple Biosphere (SiB) model of Sellers et al. (1986) for calculation of the surface fluxes for use within general circulation models is assessed. The structure of the SiB model is described, and its performance is evaluated in terms of its ability to realistically and accurately simulate biophysical processes over a number of test sites, including Ruthe (Germany), South Carolina (U.S.), and Central Wales (UK), for which point biophysical and micrometeorological data were available. The model produced simulations of the energy balances of barley, wheat, maize, and Norway Spruce sites over periods ranging from 1 to 40 days. Generally, it was found that the model reproduced time series of latent, sensible, and ground-heat fluxes and surface radiative temperature comparable with the available data.

Tomographic imaging of subducted lithosphere below northwest Pacific island arcs

USGS Publications Warehouse

Van Der Hilst, R.; Engdahl, R.; Spakman, W.; Nolet, G.

1991-01-01

The seismic tomography problem does not have a unique solution, and published tomographic images have been equivocal with regard to the deep structure of subducting slabs. An improved tomographic method, using a more realistic background Earth model and surf ace-reflected as well as direct seismic phases, shows that slabs beneath the Japan and Izu Bonin island arcs are deflected at the boundary between upper and lower mantle, whereas those beneath the northern Kuril and Mariana arcs sink into the lower mantle.

Integrated Nuclear and Conventional Theater Warfare Simulation (INWARS) Level III Specifications. Volume III. Air Combat Modeling.

DTIC Science & Technology

1978-07-24

will include an implicit air function that will perform the air planning and requesting associated with the various headquarters. The decision structure...air headquarters (The ATAF/TAA) will be included in the CIC to perform the implementation of the decisions /goals of the C21 elements, 1-4...realistic fashion. Once the AMPs have been formed, the operational process of launching, mission implementation etc. is no longer keyed to the decision cycle

Multi-scale predictive modeling of nano-material and realistic electron devices

NASA Astrophysics Data System (ADS)

Palaria, Amritanshu

Among the challenges faced in further miniaturization of electronic devices, heavy influence of the detailed atomic configuration of the material(s) involved, which often differs significantly from that of the bulk material(s), is prominent. Device design has therefore become highly interrelated with material engineering at the atomic level. This thesis aims at outlining, with examples, a multi-scale simulation procedure that allows one to integrate material and device aspects of nano-electronic design to predict behavior of novel devices with novel material. This is followed in four parts: (1) An approach that combines a higher time scale reactive force field analysis with density functional theory to predict structure of new material is demonstrated for the first time for nanowires. Novel stable structures for very small diameter silicon nanowires are predicted. (2) Density functional theory is used to show that the new nanowire structures derived in 1 above have properties different from diamond core wires even though the surface bonds in some may be similar to the surface of bulk silicon. (3) Electronic structure of relatively large-scale germanium sections of realistically strained Si/strained Ge/ strained Si nanowire heterostructures is computed using empirical tight binding and it is shown that the average non-homogeneous strain in these structures drives their interesting non-conventional electronic characteristics such as hole effective masses which decrease as the wire cross-section is reduced. (4) It is shown that tight binding, though empirical in nature, is not necessarily limited to the material and atomic structure for which the parameters have been empirically derived, but that simple changes may adapt the derived parameters to new bond environments. Si (100) surface electronic structure is obtained from bulk Si parameters.

Searching for realism, structure and agency in Actor Network Theory.

PubMed

Elder-Vass, Dave

2008-09-01

Superficially, Actor Network Theory (ANT) and critical realism (CR) are radically opposed research traditions. Written from a realist perspective, this paper asks whether there might be a basis for finding common ground between these two traditions. It looks in turn at the questions of realism, structure, and agency, analysing the differences between the two perspectives and seeking to identify what each might learn from the other. Overall, the paper argues that there is a great deal that realists can learn from actor network theory; yet ANT remains stunted by its lack of a depth ontology. It fails to recognize the significance of mechanisms, and of their dependence on emergence, and thus lacks both dimensions of the depth that is characteristic of critical realism's ontology. This prevents ANT from recognizing the role and powers of social structure; but on the other hand, realists would do well to heed ANT's call for us to trace the connections through which structures are constantly made and remade. A lack of ontological depth also underpins ANT's practice of treating human and non-human actors symmetrically, yet this remains a valuable provocation to sociologists who neglect non-human entities entirely.

Understand rotating isothermal collapses yet

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

Tohline, J.E.

1985-01-01

A scalar virial equation is used to describe the dynamic properties of equilibrium gas clouds, taking into account the relative effects of surface pressure, rotation, self gravity and internal isothermal pressure. Details concerning the internal structure of the clouds are ignored in order to obtain a globalized analytical expression. The obtained solution to the equation is found to agree with the surface-pressure-dominated model of Stahler (1983), and the rotation-dominated model of Hayashi, Narita, and Miyama (1982). On the basis of the analytical expression of virial equilibrium in the clouds, some of the limiting properties of isothermal clouds are described, andmore » a realistic starting model for cloud collapse is proposed. 18 references.« less

Phase transitions in the sdg interacting boson model

NASA Astrophysics Data System (ADS)

Van Isacker, P.; Bouldjedri, A.; Zerguine, S.

2010-05-01

A geometric analysis of the sdg interacting boson model is performed. A coherent state is used in terms of three types of deformation: axial quadrupole ( β), axial hexadecapole ( β) and triaxial ( γ). The phase-transitional structure is established for a schematic sdg Hamiltonian which is intermediate between four dynamical symmetries of U(15), namely the spherical U(5)⊗U(9), the (prolate and oblate) deformed SU(3) and the γ-soft SO(15) limits. For realistic choices of the Hamiltonian parameters the resulting phase diagram has properties close to what is obtained in the sd version of the model and, in particular, no transition towards a stable triaxial shape is found.

Defect interactions in anisotropic two-dimensional fluids

NASA Astrophysics Data System (ADS)

Stannarius, Ralf; Harth, Kirsten

Disclinations in liquid crystals bear striking analogies to defect structures in a wide variety of physical systems, they are excellent models to study fundamental properties of defect interactions. Freely suspended smectic C films behave like quasi 2D polar nematics. An experimental procedure is introduced to capture high-strength disclinations in localized spots. After they are released in a controlled way, the motion of the mutually repelling topological charges is studied. We demonstrate that the classical models, based on elastic one-constant approximation, fail to describe their dynamics correctly. In realistic liquid crystals, the models work only in ideal configurations. In general, additional director walls modify interactions substantially. Funded by DFG within project STA 425/28-1.

AxiSEM3D: broadband seismic wavefields in 3-D aspherical Earth models

NASA Astrophysics Data System (ADS)

Leng, K.; Nissen-Meyer, T.; Zad, K. H.; van Driel, M.; Al-Attar, D.

2017-12-01

Seismology is the primary tool for data-informed inference of Earth structure and dynamics. Simulating seismic wave propagation at a global scale is fundamental to seismology, but remains as one of most challenging problems in scientific computing, because of both the multiscale nature of Earth's interior and the observable frequency band of seismic data. We present a novel numerical method to simulate global seismic wave propagation in realistic 3-D Earth models. Our method, named AxiSEM3D, is a hybrid of spectral element method and pseudospectral method. It reduces the azimuthal dimension of wavefields by means of a global Fourier series parameterization, of which the number of terms can be locally adapted to the inherent azimuthal smoothness of the wavefields. AxiSEM3D allows not only for material heterogeneities, such as velocity, density, anisotropy and attenuation, but also for finite undulations on radial discontinuities, both solid-solid and solid-fluid, and thereby a variety of aspherical Earth features such as ellipticity, topography, variable crustal thickness, and core-mantle boundary topography. Such interface undulations are equivalently interpreted as material perturbations of the contiguous media, based on the "particle relabelling transformation". Efficiency comparisons show that AxiSEM3D can be 1 to 3 orders of magnitude faster than conventional 3-D methods, with the speedup increasing with simulation frequency and decreasing with model complexity, but for all realistic structures the speedup remains at least one order of magnitude. The observable frequency range of global seismic data (up to 1 Hz) has been covered for wavefield modelling upon a 3-D Earth model with reasonable computing resources. We show an application of surface wave modelling within a state-of-the-art global crustal model (Crust1.0), with the synthetics compared to real data. The high-performance C++ code is released at github.com/AxiSEM3D/AxiSEM3D.

Leveraging social networks for understanding the evolution of epidemics

PubMed Central

2011-01-01

Background To understand how infectious agents disseminate throughout a population it is essential to capture the social model in a realistic manner. This paper presents a novel approach to modeling the propagation of the influenza virus throughout a realistic interconnection network based on actual individual interactions which we extract from online social networks. The advantage is that these networks can be extracted from existing sources which faithfully record interactions between people in their natural environment. We additionally allow modeling the characteristics of each individual as well as customizing his daily interaction patterns by making them time-dependent. Our purpose is to understand how the infection spreads depending on the structure of the contact network and the individuals who introduce the infection in the population. This would help public health authorities to respond more efficiently to epidemics. Results We implement a scalable, fully distributed simulator and validate the epidemic model by comparing the simulation results against the data in the 2004-2005 New York State Department of Health Report (NYSDOH), with similar temporal distribution results for the number of infected individuals. We analyze the impact of different types of connection models on the virus propagation. Lastly, we analyze and compare the effects of adopting several different vaccination policies, some of them based on individual characteristics -such as age- while others targeting the super-connectors in the social model. Conclusions This paper presents an approach to modeling the propagation of the influenza virus via a realistic social model based on actual individual interactions extracted from online social networks. We implemented a scalable, fully distributed simulator and we analyzed both the dissemination of the infection and the effect of different vaccination policies on the progress of the epidemics. The epidemic values predicted by our simulator match real data from NYSDOH. Our results show that our simulator can be a useful tool in understanding the differences in the evolution of an epidemic within populations with different characteristics and can provide guidance with regard to which, and how many, individuals should be vaccinated to slow down the virus propagation and reduce the number of infections. PMID:22784620

An Anisotropic Hardening Model for Springback Prediction

NASA Astrophysics Data System (ADS)

Zeng, Danielle; Xia, Z. Cedric

2005-08-01

As more Advanced High-Strength Steels (AHSS) are heavily used for automotive body structures and closures panels, accurate springback prediction for these components becomes more challenging because of their rapid hardening characteristics and ability to sustain even higher stresses. In this paper, a modified Mroz hardening model is proposed to capture realistic Bauschinger effect at reverse loading, such as when material passes through die radii or drawbead during sheet metal forming process. This model accounts for material anisotropic yield surface and nonlinear isotropic/kinematic hardening behavior. Material tension/compression test data are used to accurately represent Bauschinger effect. The effectiveness of the model is demonstrated by comparison of numerical and experimental springback results for a DP600 straight U-channel test.

Comparison of convective clouds observed by spaceborne W-band radar and simulated by cloud-resolving atmospheric models

NASA Astrophysics Data System (ADS)

Dodson, Jason B.

Deep convective clouds (DCCs) play an important role in regulating global climate through vertical mass flux, vertical water transport, and radiation. For general circulation models (GCMs) to simulate the global climate realistically, they must simulate DCCs realistically. GCMs have traditionally used cumulus parameterizations (CPs). Much recent research has shown that multiple persistent unrealistic behaviors in GCMs are related to limitations of CPs. Two alternatives to CPs exist: the global cloud-resolving model (GCRM), and the multiscale modeling framework (MMF). Both can directly simulate the coarser features of DCCs because of their multi-kilometer horizontal resolutions, and can simulate large-scale meteorological processes more realistically than GCMs. However, the question of realistic behavior of simulated DCCs remains. How closely do simulated DCCs resemble observed DCCs? In this study I examine the behavior of DCCs in the Nonhydrostatic Icosahedral Atmospheric Model (NICAM) and Superparameterized Community Atmospheric Model (SP-CAM), the latter with both single-moment and double-moment microphysics. I place particular emphasis on the relationship between cloud vertical structure and convective environment. I also emphasize the transition between shallow clouds and mature DCCs. The spatial domains used are the tropical oceans and the contiguous United States (CONUS), the latter of which produces frequent vigorous convection during the summer. CloudSat is used to observe DCCs, and A-Train and reanalysis data are used to represent the large-scale environment in which the clouds form. The CloudSat cloud mask and radar reflectivity profiles for CONUS cumuliform clouds (defined as clouds with a base within the planetary boundary layer) during boreal summer are first averaged and compared. Both NICAM and SP-CAM greatly underestimate the vertical growth of cumuliform clouds. Then they are sorted by three large-scale environmental variables: total preciptable water (TPW), surface air temperature (SAT), and 500hPa vertical velocity (W500), representing the dynamical and thermodynamical environment in which the clouds form. The sorted CloudSat profiles are then compared with NICAM and SP-CAM profiles simulated with the Quickbeam CloudSat simulator. Both models have considerable difficulty representing the relationship of SAT and clouds over CONUS. For TPW and W500, shallow clouds transition to DCCs at higher values than observed. This may be an indication of the models' inability to represent the formation of DCCs in marginal convective environments. NICAM develops tall DCCs in highly favorable environments, but SP-CAM appears to be incapable of developing tall DCCs in almost any environment. The use of double moment microphysics in SP-CAM improves the frequency of deep clouds and their relationship with TPW, but not SAT. Both models underpredict radar reflectivity in the upper cloud of mature DCCs. SP-CAM with single moment microphysics has a particularly unrealistic DCC reflectivity profile, but with double moment microphysics it improves substantially. SP-CAM with double-moment microphysics unexpectedly appears to weaken DCC updraft strength as TPW increases, but otherwise both NICAM and SP-CAM represent the environment-versus-DCC relationships fairly realistically.

Physics-Based Hazard Assessment for Critical Structures Near Large Earthquake Sources

NASA Astrophysics Data System (ADS)

Hutchings, L.; Mert, A.; Fahjan, Y.; Novikova, T.; Golara, A.; Miah, M.; Fergany, E.; Foxall, W.

2017-09-01

We argue that for critical structures near large earthquake sources: (1) the ergodic assumption, recent history, and simplified descriptions of the hazard are not appropriate to rely on for earthquake ground motion prediction and can lead to a mis-estimation of the hazard and risk to structures; (2) a physics-based approach can address these issues; (3) a physics-based source model must be provided to generate realistic phasing effects from finite rupture and model near-source ground motion correctly; (4) wave propagations and site response should be site specific; (5) a much wider search of possible sources of ground motion can be achieved computationally with a physics-based approach; (6) unless one utilizes a physics-based approach, the hazard and risk to structures has unknown uncertainties; (7) uncertainties can be reduced with a physics-based approach, but not with an ergodic approach; (8) computational power and computer codes have advanced to the point that risk to structures can be calculated directly from source and site-specific ground motions. Spanning the variability of potential ground motion in a predictive situation is especially difficult for near-source areas, but that is the distance at which the hazard is the greatest. The basis of a "physical-based" approach is ground-motion syntheses derived from physics and an understanding of the earthquake process. This is an overview paper and results from previous studies are used to make the case for these conclusions. Our premise is that 50 years of strong motion records is insufficient to capture all possible ranges of site and propagation path conditions, rupture processes, and spatial geometric relationships between source and site. Predicting future earthquake scenarios is necessary; models that have little or no physical basis but have been tested and adjusted to fit available observations can only "predict" what happened in the past, which should be considered description as opposed to prediction. We have developed a methodology for synthesizing physics-based broadband ground motion that incorporates the effects of realistic earthquake rupture along specific faults and the actual geology between the source and site.

Cortical Spiking Network Interfaced with Virtual Musculoskeletal Arm and Robotic Arm

PubMed Central

Dura-Bernal, Salvador; Zhou, Xianlian; Neymotin, Samuel A.; Przekwas, Andrzej; Francis, Joseph T.; Lytton, William W.

2015-01-01

Embedding computational models in the physical world is a critical step towards constraining their behavior and building practical applications. Here we aim to drive a realistic musculoskeletal arm model using a biomimetic cortical spiking model, and make a robot arm reproduce the same trajectories in real time. Our cortical model consisted of a 3-layered cortex, composed of several hundred spiking model-neurons, which display physiologically realistic dynamics. We interconnected the cortical model to a two-joint musculoskeletal model of a human arm, with realistic anatomical and biomechanical properties. The virtual arm received muscle excitations from the neuronal model, and fed back proprioceptive information, forming a closed-loop system. The cortical model was trained using spike timing-dependent reinforcement learning to drive the virtual arm in a 2D reaching task. Limb position was used to simultaneously control a robot arm using an improved network interface. Virtual arm muscle activations responded to motoneuron firing rates, with virtual arm muscles lengths encoded via population coding in the proprioceptive population. After training, the virtual arm performed reaching movements which were smoother and more realistic than those obtained using a simplistic arm model. This system provided access to both spiking network properties and to arm biophysical properties, including muscle forces. The use of a musculoskeletal virtual arm and the improved control system allowed the robot arm to perform movements which were smoother than those reported in our previous paper using a simplistic arm. This work provides a novel approach consisting of bidirectionally connecting a cortical model to a realistic virtual arm, and using the system output to drive a robotic arm in real time. Our techniques are applicable to the future development of brain neuroprosthetic control systems, and may enable enhanced brain-machine interfaces with the possibility for finer control of limb prosthetics. PMID:26635598

Critical Seismic Vector Random Excitations for Multiply Supported Structures

NASA Astrophysics Data System (ADS)

Sarkar, A.; Manohar, C. S.

1998-05-01

A method for determining critical power spectral density matrix models for earthquake excitations which maximize steady response variance of linear multiply supported extended structures and which also satisfy constraints on input variance, zero crossing rates, frequency content and transmission time lag has been developed. The optimization problem is shown to be non-linear in nature and solutions are obtained by using an iterative technique which is based on linear programming method. A constraint on entropy rate as a measure of uncertainty which can be expected in realistic earthquake ground motions is proposed which makes the critical excitations more realistic. Two special cases are also considered. Firstly, when knowledge of autospectral densities is available, the critical response is shown to be produced by fully coherent excitations which are neither in-phase nor out-of-phase. The critical phase between the excitation components depends on structural parameters, but independent of the auto-spectral densities of the excitations. Secondly, when the knowledge of autospectral densities and phase spectrum of the excitations is available, the critical response is shown to be produced by a system dependent coherence function representing neither fully coherent nor fully incoherent ground motions. The applications of these special cases are discussed in the context of land-based extended structures and secondary systems such as nuclear piping assembly. Illustrative examples on critical inputs and response of sdof and a long-span suspended cable which demonstrated the various features of the approach developed are presented.

On the temporal evolution of long-wavelength mantle structure of the Earth since the early Paleozoic

NASA Astrophysics Data System (ADS)

Zhong, Shijie; Rudolph, Maxwell L.

2015-05-01

The seismic structure of the Earth's lower mantle is characterized by a dominantly degree-2 pattern with the African and Pacific large low shear velocity provinces (i.e., LLSVP) that are separated by circum-Pacific seismically fast anomalies. It is important to understand the origin of such a degree-2 mantle structure and its temporal evolution. In this study, we investigated the effects of plate motion history and mantle viscosity on the temporal evolution of the lower mantle structure since the early Paleozoic by formulating 3-D spherical shell models of thermochemical convection. For convection models with realistic mantle viscosity and no initial structure, it takes about ˜50 Myr to develop dominantly degree-2 lower mantle structure using the published plate motion models for the last either 120 Ma or 250 Ma. However, it takes longer time to develop the mantle structure for more viscous mantle. While the circum-Pangea subduction in plate motion history models promotes the formation of degree-2 mantle structure, the published pre-Pangea plate motions before 330 Ma produce relatively cold lower mantle in the African hemisphere and significant degree-1 structure in the early Pangea (˜300 Ma) or later times, even if the lower mantle has an initially degree-2 structure and a viscosity as high as 1023 Pas. This suggests that the African LLSVP may not be stationary since the early Paleozoic. With the published plate motion models and lower mantle viscosity of 1022 Pas, our mantle convection models suggest that the present-day degree-2 mantle structure may have largely been formed by ˜200 Ma.

Reservoir studies with geostatistics to forecast performance

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

Tang, R.W.; Behrens, R.A.; Emanuel, A.S.

1991-05-01

In this paper example geostatistics and streamtube applications are presented for waterflood and CO{sub 2} flood in two low-permeability sandstone reservoirs. Thy hybrid approach of combining fine vertical resolution in cross-sectional models with streamtubes resulted in models that showed water channeling and provided realistic performance estimates. Results indicate that the combination of detailed geostatistical cross sections and fine-grid streamtube models offers a systematic approach for realistic performance forecasts.

Constraint Logic Programming approach to protein structure prediction.

PubMed

Dal Palù, Alessandro; Dovier, Agostino; Fogolari, Federico

2004-11-30

The protein structure prediction problem is one of the most challenging problems in biological sciences. Many approaches have been proposed using database information and/or simplified protein models. The protein structure prediction problem can be cast in the form of an optimization problem. Notwithstanding its importance, the problem has very seldom been tackled by Constraint Logic Programming, a declarative programming paradigm suitable for solving combinatorial optimization problems. Constraint Logic Programming techniques have been applied to the protein structure prediction problem on the face-centered cube lattice model. Molecular dynamics techniques, endowed with the notion of constraint, have been also exploited. Even using a very simplified model, Constraint Logic Programming on the face-centered cube lattice model allowed us to obtain acceptable results for a few small proteins. As a test implementation their (known) secondary structure and the presence of disulfide bridges are used as constraints. Simplified structures obtained in this way have been converted to all atom models with plausible structure. Results have been compared with a similar approach using a well-established technique as molecular dynamics. The results obtained on small proteins show that Constraint Logic Programming techniques can be employed for studying protein simplified models, which can be converted into realistic all atom models. The advantage of Constraint Logic Programming over other, much more explored, methodologies, resides in the rapid software prototyping, in the easy way of encoding heuristics, and in exploiting all the advances made in this research area, e.g. in constraint propagation and its use for pruning the huge search space.

Hemodynamic Changes Caused by Flow Diverters in Rabbit Aneurysm Models: Comparison of Virtual and Realistic FD Deployments Based on Micro-CT Reconstruction

PubMed Central

Fang, Yibin; Yu, Ying; Cheng, Jiyong; Wang, Shengzhang; Wang, Kuizhong; Liu, Jian-Min; Huang, Qinghai

2013-01-01

Adjusting hemodynamics via flow diverter (FD) implantation is emerging as a novel method of treating cerebral aneurysms. However, most previous FD-related hemodynamic studies were based on virtual FD deployment, which may produce different hemodynamic outcomes than realistic (in vivo) FD deployment. We compared hemodynamics between virtual FD and realistic FD deployments in rabbit aneurysm models using computational fluid dynamics (CFD) simulations. FDs were implanted for aneurysms in 14 rabbits. Vascular models based on rabbit-specific angiograms were reconstructed for CFD studies. Real FD configurations were reconstructed based on micro-CT scans after sacrifice, while virtual FD configurations were constructed with SolidWorks software. Hemodynamic parameters before and after FD deployment were analyzed. According to the metal coverage (MC) of implanted FDs calculated based on micro-CT reconstruction, 14 rabbits were divided into two groups (A, MC >35%; B, MC <35%). Normalized mean wall shear stress (WSS), relative residence time (RRT), inflow velocity, and inflow volume in Group A were significantly different (P<0.05) from virtual FD deployment, but pressure was not (P>0.05). The normalized mean WSS in Group A after realistic FD implantation was significantly lower than that of Group B. All parameters in Group B exhibited no significant difference between realistic and virtual FDs. This study confirmed MC-correlated differences in hemodynamic parameters between realistic and virtual FD deployment. PMID:23823503

Representations of spacetime: Formalism and ontological commitment

NASA Astrophysics Data System (ADS)

Bain, Jonathan Stanley

This dissertation consists of two parts. The first is on the relation between formalism and ontological commitment in the context of theories of spacetime, and the second is on scientific realism. The first part begins with a look at how the substantivalist/relationist debate over the ontological status of spacetime has been influenced by a particular mathematical formalism, that of tensor analysis on differential manifolds (TADM). This formalism has motivated the substantivalist position known as manifold substantivalism. Chapter 1 focuses on the hole argument which maintains that manifold substantivalism is incompatible with determinism. I claim that the realist motivations underlying manifold substantivalism can be upheld, and the hole argument avoided, by adopting structural realism with respect to spacetime. In this context, this is the claim that it is the structure that spacetime points enter into that warrants belief and not the points themselves. In Chapter 2, an elimination principle is defined by means of which a distinction can be made between surplus structure and essential structure with respect to formulations of a theory in two distinct mathematical formulations and some prior ontological commitments. This principle is then used to demonstrate that manifold points may be considered surplus structure in the formulation of field theories. This suggests that, if we are disposed to read field theories literally, then, at most, it should be the essential structure common to all alternative formulations of such theories that should be taken literally. I also investigate how the adoption of alternative formalisms informs other issues in the philosophy of spacetime. Chapter 3 offers a realist position which takes a semantic moral from the preceding investigation and an epistemic moral from work done on reliability. The semantic moral advises us to read only the essential structure of our theories literally. The epistemic moral shows us that such structure is robust under theory change, given an adequate reliabilist notion of epistemic warrant. I call the realist position that subscribes to these morals structural realism and attempt to demonstrate that it is immune to the semantic and epistemic versions of the underdetermination argument posed by the anti-realist.

The Creation and Statistical Evaluation of a Deterministic Model of the Human Bronchial Tree from HRCT Images.

PubMed

Montesantos, Spyridon; Katz, Ira; Pichelin, Marine; Caillibotte, Georges

2016-01-01

A quantitative description of the morphology of lung structure is essential prior to any form of predictive modeling of ventilation or aerosol deposition implemented within the lung. The human lung is a very complex organ, with airway structures that span two orders of magnitude and having a multitude of interfaces between air, tissue and blood. As such, current medical imaging protocols cannot provide medical practitioners and researchers with in-vivo knowledge of deeper lung structures. In this work a detailed algorithm for the generation of an individualized 3D deterministic model of the conducting part of the human tracheo-bronchial tree is described. Distinct initial conditions were obtained from the high-resolution computed tomography (HRCT) images of seven healthy volunteers. The algorithm developed is fractal in nature and is implemented as a self-similar space sub-division procedure. The expansion process utilizes physiologically realistic relationships and thresholds to produce an anatomically consistent human airway tree. The model was validated through extensive statistical analysis of the results and comparison of the most common morphological features with previously published morphometric studies and other equivalent models. The resulting trees were shown to be in good agreement with published human lung geometric characteristics and can be used to study, among other things, structure-function relationships in simulation studies.

Resolving Cognitive Conflict in a Realistic Situation with Modeling Characteristics: Coping with a Changing Reference in Fractions

ERIC Educational Resources Information Center

Shahbari, Juhaina Awawdeh; Peled, Irit

2015-01-01

This study investigates the effect of using a realistic situation with modeling characteristics in creating and resolving a cognitive conflict to promote understanding of a changing reference in fraction calculations. The study was conducted among 96 seventh graders divided into 2 experimental groups and 1 control group. The experimental groups…

Improving the forecast for biodiversity under climate change.

PubMed

Urban, M C; Bocedi, G; Hendry, A P; Mihoub, J-B; Pe'er, G; Singer, A; Bridle, J R; Crozier, L G; De Meester, L; Godsoe, W; Gonzalez, A; Hellmann, J J; Holt, R D; Huth, A; Johst, K; Krug, C B; Leadley, P W; Palmer, S C F; Pantel, J H; Schmitz, A; Zollner, P A; Travis, J M J

2016-09-09

New biological models are incorporating the realistic processes underlying biological responses to climate change and other human-caused disturbances. However, these more realistic models require detailed information, which is lacking for most species on Earth. Current monitoring efforts mainly document changes in biodiversity, rather than collecting the mechanistic data needed to predict future changes. We describe and prioritize the biological information needed to inform more realistic projections of species' responses to climate change. We also highlight how trait-based approaches and adaptive modeling can leverage sparse data to make broader predictions. We outline a global effort to collect the data necessary to better understand, anticipate, and reduce the damaging effects of climate change on biodiversity. Copyright © 2016, American Association for the Advancement of Science.

Parking simulation of three-dimensional multi-sized star-shaped particles

NASA Astrophysics Data System (ADS)

Zhu, Zhigang; Chen, Huisu; Xu, Wenxiang; Liu, Lin

2014-04-01

The shape and size of particles may have a great impact on the microstructure as well as the physico-properties of particulate composites. However, it is challenging to configure a parking system of particles to a geometrical shape that is close to realistic grains in particulate composites. In this work, with the assistance of x-ray tomography and a spherical harmonic series, we present a star-shaped particle that is close to realistic arbitrary-shaped grains. To realize such a hard particle parking structure, an inter-particle overlapping detection algorithm is introduced. A serial sectioning approach is employed to visualize the particle parking structure for the purpose of justifying the reliability of the overlapping detection algorithm. Furthermore, the validity of the area and perimeter of solids in any arbitrary section of a plane calculated using a numerical method is verified by comparison with those obtained using an image analysis approach. This contribution is helpful to further understand the dependence of the micro-structure and physico-properties of star-shaped particles on the realistic geometrical shape.

A simulation model for analysing brain structure deformations.

PubMed

Di Bona, Sergio; Lutzemberger, Ludovico; Salvetti, Ovidio

2003-12-21

Recent developments of medical software applications--from the simulation to the planning of surgical operations--have revealed the need for modelling human tissues and organs, not only from a geometric point of view but also from a physical one, i.e. soft tissues, rigid body, viscoelasticity, etc. This has given rise to the term 'deformable objects', which refers to objects with a morphology, a physical and a mechanical behaviour of their own and that reflects their natural properties. In this paper, we propose a model, based upon physical laws, suitable for the realistic manipulation of geometric reconstructions of volumetric data taken from MR and CT scans. In particular, a physically based model of the brain is presented that is able to simulate the evolution of different nature pathological intra-cranial phenomena such as haemorrhages, neoplasm, haematoma, etc and to describe the consequences that are caused by their volume expansions and the influences they have on the anatomical and neuro-functional structures of the brain.

Thai students' mental model of chemical bonding

NASA Astrophysics Data System (ADS)

Sarawan, Supawadee; Yuenyong, Chokchai

2018-01-01

This Research was finding the viewing about concept of chemical bonding is fundamental to subsequent learning of various other topics related to this concept in chemistry. Any conceptions about atomic structures that students have will be shown their further learning. The purpose of this study is to interviews conceptions held by high school chemistry students about metallic bonding and to reveal mental model of atomic structures show according to the educational level. With this aim, the questionnaire prepared making use of the literature and administered for analysis about mental model of chemical bonding. It was determined from the analysis of answers of questionnaire the 10th grade, 11th grade and 12th grade students. Finally, each was shown prompts in the form of focus cards derived from curriculum material that showed ways in which the bonding in specific metallic substances had been depicted. Students' responses revealed that learners across all three levels prefer simple, realistic mental models for metallic bonding and reveal to chemical bonding.

Performance Evaluation of the Gravity Probe B Design

NASA Technical Reports Server (NTRS)

Francis, Ronnie; Wells, Eugene M.

1996-01-01

This report documents the simulation of the Lockheed Martin designed Gravity Probe B (GPB) spacecraft developed tool by bd Systems Inc using the TREETOPS simulation. This study quantifies the effects of flexibility and liquid helium slosh on GPB spacecraft control performance. The TREETOPS simulation tool permits the simulation of flexible structures given that a flexible body model of the structure is available. For purposes of this study, a flexible model of the GPB spacecraft was obtained from Lockheed Martin. To model the liquid helium slosh effects, computational fluid dynamics (CFD) results' were obtained, and used to develop a dynamic model of the slosh effects. The flexible body and slosh effects were incorporated separately into the TREETOPS simulation, which places the vehicle in a 650 km circular polar orbit and subjects the spacecraft to realistic environmental disturbances and sensor error quantities. In all of the analysis conducted in this study the spacecraft is pointed at an inertially fixed guide star (GS) and is rotating at a constant rate about this line of sight.

Raman Monte Carlo simulation for light propagation for tissue with embedded objects

NASA Astrophysics Data System (ADS)

Periyasamy, Vijitha; Jaafar, Humaira Bte; Pramanik, Manojit

2018-02-01

Monte Carlo (MC) stimulation is one of the prominent simulation technique and is rapidly becoming the model of choice to study light-tissue interaction. Monte Carlo simulation for light transport in multi-layered tissue (MCML) is adapted and modelled with different geometry by integrating embedded objects of various shapes (i.e., sphere, cylinder, cuboid and ellipsoid) into the multi-layered structure. These geometries would be useful in providing a realistic tissue structure such as modelling for lymph nodes, tumors, blood vessels, head and other simulation medium. MC simulations were performed on various geometric medium. Simulation of MCML with embedded object (MCML-EO) was improvised for propagation of the photon in the defined medium with Raman scattering. The location of Raman photon generation is recorded. Simulations were experimented on a modelled breast tissue with tumor (spherical and ellipsoidal) and blood vessels (cylindrical). Results were presented in both A-line and B-line scans for embedded objects to determine spatial location where Raman photons were generated. Studies were done for different Raman probabilities.

The Madden-Julian oscillation in ECHAM4 coupled and uncoupled general circulation models

DOE PAGES

Sperber, Kenneth R.; Gualdi, Silvio; Legutke, Stephanie; ...

2005-06-29

The Madden-Julian oscillation (MJO) dominates tropical variability on timescales of 30–70 days. During the boreal winter/spring, it is manifested as an eastward propagating disturbance, with a strong convective signature over the eastern hemisphere. The space–time structure of the MJO is analyzed using simulations with the ECHAM4 atmospheric general circulation model run with observed monthly mean sea-surface temperatures (SSTs), and coupled to three different ocean models. The coherence of the eastward propagation of MJO convection is sensitive to the ocean model to which ECHAM4 is coupled. For ECHAM4/OPYC and ECHO-G, models for which ~100 years of daily data is available, Montemore » Carlo sampling indicates that their metrics of eastward propagation are different at the 1% significance level. The flux-adjusted coupled simulations, ECHAM4/OPYC and ECHO-G, maintain a more realistic mean-state, and have a more realistic MJO simulation than the nonadjusted scale interaction experiment (SINTEX) coupled runs. The SINTEX model exhibits a cold bias in Indian Ocean and tropical West Pacific Ocean sea-surface temperature of ~0.5°C. This cold bias affects the distribution of time-mean convection over the tropical eastern hemisphere. Furthermore, the eastward propagation of MJO convection in this model is not as coherent as in the two models that used flux adjustment or when compared to an integration of ECHAM4 with prescribed observed SST. This result suggests that simulating a realistic basic state is at least as important as air–sea interaction for organizing the MJO. While all of the coupled models simulate the warm (cold) SST anomalies that precede (succeed) the MJO convection, the interaction of the components of the net surface heat flux that lead to these anomalies are different over the Indian Ocean. The ECHAM4/OPYC model in which the atmospheric model is run at a horizontal resolution of T42, has eastward propagating zonal wind anomalies and latent heat flux anomalies. However, the integrations with ECHO-G and SINTEX, which used T30 atmospheres, produce westward propagation of the latent heat flux anomalies, contrary to reanalysis. Furthermore, it is suggested that the differing ability of the models to represent the near-surface westerlies over the Indian Ocean is related to the different horizontal resolutions of the atmospheric model employed.« less

Coordination control of flexible manufacturing systems

NASA Astrophysics Data System (ADS)

Menon, Satheesh R.

One of the first attempts was made to develop a model driven system for coordination control of Flexible Manufacturing Systems (FMS). The structure and activities of the FMS are modeled using a colored Petri Net based system. This approach has the advantage of being able to model the concurrency inherent in the system. It provides a method for encoding the system state, state transitions and the feasible transitions at any given state. Further structural analysis (for detecting conflicting actions, deadlocks which might occur during operation, etc.) can be performed. The problem is also addressed of implementing and testing the behavior of existing dynamic scheduling approaches in simulations of realistic situations. A simulation architecture was proposed and performance evaluation was carried out for establishing the correctness of the model, stability of the system from a structural (deadlocks) and temporal (boundedness of backlogs) points of view, and for collection of statistics for performance measures such as machine and robot utilizations, average wait times and idle times of resources. A real-time implementation architecture for the coordination controller was also developed and implemented in a software simulated environment. Given the current technology of FMS control, the model-driven colored Petri net-based approach promises to develop a very flexible control environment.

NDE and SHM Simulation for CFRP Composites

NASA Technical Reports Server (NTRS)

Leckey, Cara A. C.; Parker, F. Raymond

2014-01-01

Ultrasound-based nondestructive evaluation (NDE) is a common technique for damage detection in composite materials. There is a need for advanced NDE that goes beyond damage detection to damage quantification and characterization in order to enable data driven prognostics. The damage types that exist in carbon fiber-reinforced polymer (CFRP) composites include microcracking and delaminations, and can be initiated and grown via impact forces (due to ground vehicles, tool drops, bird strikes, etc), fatigue, and extreme environmental changes. X-ray microfocus computed tomography data, among other methods, have shown that these damage types often result in voids/discontinuities of a complex volumetric shape. The specific damage geometry and location within ply layers affect damage growth. Realistic threedimensional NDE and structural health monitoring (SHM) simulations can aid in the development and optimization of damage quantification and characterization techniques. This paper is an overview of ongoing work towards realistic NDE and SHM simulation tools for composites, and also discusses NASA's need for such simulation tools in aeronautics and spaceflight. The paper describes the development and implementation of a custom ultrasound simulation tool that is used to model ultrasonic wave interaction with realistic 3-dimensional damage in CFRP composites. The custom code uses elastodynamic finite integration technique and is parallelized to run efficiently on computing cluster or multicore machines.

Molecular simulation of the adsorption of methane in Engelhard titanosilicate frameworks.

PubMed

Pillai, Renjith S; Gomes, José R B; Jorge, Miguel

2014-07-01

Molecular simulations were carried out to elucidate the influence of structural heterogeneity and of the presence of extra-framework cations and water molecules on the adsorption of methane in Engelhard titanosilicates, ETS-10 and ETS-4. The simulations employed three different modeling approaches, (i) with fixed cations and water at their single crystal positions, (ii) with fixed cations and water at their optimized positions, and (iii) with mobile extra-framework cations and water molecules. Simulations employing the final two approaches provided a more realistic description of adsorption in these materials, and showed that at least some cations and water molecules are displaced from the crystallographic positions obtained from single crystal data. Upon methane adsorption in the case of ETS-10, the cations move to the large rings, while in the case of ETS-4, the water molecules and cations migrate to more available space in the larger 12-membered ring channels for better accommodation of the methane molecules. For ETS-4, we also considered adsorption in all possible pure polymorph structures and then combined these to provide an estimate of adsorption in a real ETS-4 sample. By comparing simulated adsorption isotherms to experimental data, we were able to show that both the mobility of extra-framework species and the structural heterogeneity should be taken into account for realistic predictions of adsorption in titanosilicate materials.

A structural model of polyglutamine determined from a host-guest method combining experiments and landscape theory.

PubMed

Finke, John M; Cheung, Margaret S; Onuchic, José N

2004-09-01

Modeling the structure of natively disordered peptides has proved difficult due to the lack of structural information on these peptides. In this work, we use a novel application of the host-guest method, combining folding theory with experiments, to model the structure of natively disordered polyglutamine peptides. Initially, a minimalist molecular model (C(alpha)C(beta)) of CI2 is developed with a structurally based potential and captures many of the folding properties of CI2 determined from experiments. Next, polyglutamine "guest" inserts of increasing length are introduced into the CI2 "host" model and the polyglutamine is modeled to match the resultant change in CI2 thermodynamic stability between simulations and experiments. The polyglutamine model that best mimics the experimental changes in CI2 thermodynamic stability has 1), a beta-strand dihedral preference and 2), an attractive energy between polyglutamine atoms 0.75-times the attractive energy between the CI2 host Go-contacts. When free-energy differences in the CI2 host-guest system are correctly modeled at varying lengths of polyglutamine guest inserts, the kinetic folding rates and structural perturbation of these CI2 insert mutants are also correctly captured in simulations without any additional parameter adjustment. In agreement with experiments, the residues showing structural perturbation are located in the immediate vicinity of the loop insert. The simulated polyglutamine loop insert predominantly adopts extended random coil conformations, a structural model consistent with low resolution experimental methods. The agreement between simulation and experimental CI2 folding rates, CI2 structural perturbation, and polyglutamine insert structure show that this host-guest method can select a physically realistic model for inserted polyglutamine. If other amyloid peptides can be inserted into stable protein hosts and the stabilities of these host-guest mutants determined, this novel host-guest method may prove useful to determine structural preferences of these intractable but biologically relevant protein fragments.

Comparison of in silico models for prediction of mutagenicity.

PubMed

Bakhtyari, Nazanin G; Raitano, Giuseppa; Benfenati, Emilio; Martin, Todd; Young, Douglas

2013-01-01

Using a dataset with more than 6000 compounds, the performance of eight quantitative structure activity relationships (QSAR) models was evaluated: ACD/Tox Suite, Absorption, Distribution, Metabolism, Elimination, and Toxicity of chemical substances (ADMET) predictor, Derek, Toxicity Estimation Software Tool (T.E.S.T.), TOxicity Prediction by Komputer Assisted Technology (TOPKAT), Toxtree, CEASAR, and SARpy (SAR in python). In general, the results showed a high level of performance. To have a realistic estimate of the predictive ability, the results for chemicals inside and outside the training set for each model were considered. The effect of applicability domain tools (when available) on the prediction accuracy was also evaluated. The predictive tools included QSAR models, knowledge-based systems, and a combination of both methods. Models based on statistical QSAR methods gave better results.

High-resolution comparative modeling with RosettaCM.

PubMed

Song, Yifan; DiMaio, Frank; Wang, Ray Yu-Ruei; Kim, David; Miles, Chris; Brunette, Tj; Thompson, James; Baker, David

2013-10-08

We describe an improved method for comparative modeling, RosettaCM, which optimizes a physically realistic all-atom energy function over the conformational space defined by homologous structures. Given a set of sequence alignments, RosettaCM assembles topologies by recombining aligned segments in Cartesian space and building unaligned regions de novo in torsion space. The junctions between segments are regularized using a loop closure method combining fragment superposition with gradient-based minimization. The energies of the resulting models are optimized by all-atom refinement, and the most representative low-energy model is selected. The CASP10 experiment suggests that RosettaCM yields models with more accurate side-chain and backbone conformations than other methods when the sequence identity to the templates is greater than ∼15%. Copyright © 2013 Elsevier Ltd. All rights reserved.

Explicit Convection over the Western Pacific Warm Pool in the Community Atmospheric Model.

NASA Astrophysics Data System (ADS)

Ziemiaski, Micha Z.; Grabowski, Wojciech W.; Moncrieff, Mitchell W.

2005-05-01

This paper reports on the application of the cloud-resolving convection parameterization (CRCP) to the Community Atmospheric Model (CAM), the atmospheric component of the Community Climate System Model (CCSM). The cornerstone of CRCP is the use of a two-dimensional zonally oriented cloud-system-resolving model to represent processes on mesoscales at the subgrid scale of a climate model. Herein, CRCP is applied at each climate model column over the tropical western Pacific warm pool, in a domain spanning 10°S-10°N, 150°-170°E. Results from the CRCP simulation are compared with CAM in its standard configuration.The CRCP simulation shows significant improvements of the warm pool climate. The cloud condensate distribution is much improved as well as the bias of the tropopause height. More realistic structure of the intertropical convergence zone (ITCZ) during the boreal winter and better representation of the variability of convection are evident. In particular, the diurnal cycle of precipitation has phase and amplitude in good agreement with observations. Also improved is the large-scale organization of the tropical convection, especially superclusters associated with Madden-Julian oscillation (MJO)-like systems. Location and propagation characteristics, as well as lower-tropospheric cyclonic and upper-tropospheric anticyclonic gyres, are more realistic than in the standard CAM. Finally, the simulations support an analytic theory of dynamical coupling between organized convection and equatorial beta-plane vorticity dynamics associated with MJO-like systems.

Online model evaluation of large-eddy simulations covering Germany with a horizontal resolution of 156 m

NASA Astrophysics Data System (ADS)

Hansen, Akio; Ament, Felix; Lammert, Andrea

2017-04-01

Large-eddy simulations have been performed since several decades, but due to computational limits most studies were restricted to small domains or idealised initial-/boundary conditions. Within the High definition clouds and precipitation for advancing climate prediction (HD(CP)2) project realistic weather forecasting like LES simulations were performed with the newly developed ICON LES model for several days. The domain covers central Europe with a horizontal resolution down to 156 m. The setup consists of more than 3 billion grid cells, by what one 3D dump requires roughly 500 GB. A newly developed online evaluation toolbox was created to check instantaneously for realistic model simulations. The toolbox automatically combines model results with observations and generates several quicklooks for various variables. So far temperature-/humidity profiles, cloud cover, integrated water vapour, precipitation and many more are included. All kind of observations like aircraft observations, soundings or precipitation radar networks are used. For each dataset, a specific module is created, which allows for an easy handling and enhancement of the toolbox. Most of the observations are automatically downloaded from the Standardized Atmospheric Measurement Database (SAMD). The evaluation tool should support scientists at monitoring computational costly model simulations as well as to give a first overview about model's performance. The structure of the toolbox as well as the SAMD database are presented. Furthermore, the toolbox was applied on an ICON LES sensitivity study, where example results are shown.

Predictive power of theoretical modelling of the nuclear mean field: examples of improving predictive capacities

NASA Astrophysics Data System (ADS)

Dedes, I.; Dudek, J.

2018-03-01

We examine the effects of the parametric correlations on the predictive capacities of the theoretical modelling keeping in mind the nuclear structure applications. The main purpose of this work is to illustrate the method of establishing the presence and determining the form of parametric correlations within a model as well as an algorithm of elimination by substitution (see text) of parametric correlations. We examine the effects of the elimination of the parametric correlations on the stabilisation of the model predictions further and further away from the fitting zone. It follows that the choice of the physics case and the selection of the associated model are of secondary importance in this case. Under these circumstances we give priority to the relative simplicity of the underlying mathematical algorithm, provided the model is realistic. Following such criteria, we focus specifically on an important but relatively simple case of doubly magic spherical nuclei. To profit from the algorithmic simplicity we chose working with the phenomenological spherically symmetric Woods–Saxon mean-field. We employ two variants of the underlying Hamiltonian, the traditional one involving both the central and the spin orbit potential in the Woods–Saxon form and the more advanced version with the self-consistent density-dependent spin–orbit interaction. We compare the effects of eliminating of various types of correlations and discuss the improvement of the quality of predictions (‘predictive power’) under realistic parameter adjustment conditions.

NDE in aerospace-requirements for science, sensors and sense.

PubMed

Heyman, J S

1989-01-01

The complexity of modern NDE (nondestructive evaluation) arises from four main factors: quantitative measurement, science, physical models for computational analysis, realistic interfacing with engineering decisions, and direct access to management priorities. Recent advances in the four factors of NDE are addressed. Physical models of acoustic propagation are presented that have led to the development of measurement technologies advancing the ability to assure that materials and structures will perform a design. In addition, a brief discussion is given of current research for future mission needs such as smart structures that sense their own health. Such advances permit projects to integrate design for inspection into their plans, bringing NDE into engineering and management priorities. The measurement focus is on ultrasonics with generous case examples. Problem solutions highlighted include critical stress in fasteners, residual stress in steel, NDE laminography, and solid rocket motor NDE.

Fluid-structure interaction in straight pipelines with different anchoring conditions

NASA Astrophysics Data System (ADS)

Ferras, David; Manso, Pedro A.; Schleiss, Anton J.; Covas, Dídia I. C.

2017-04-01

This investigation aims at assessing the fluid-structure interaction (FSI) occurring during hydraulic transients in straight pipeline systems fixed to anchor blocks. A two mode 4-equation model is implemented incorporating the main interacting mechanisms: Poisson, friction and junction coupling. The resistance to movement due to inertia and dry friction of the anchor blocks is treated as junction coupling. Unsteady skin friction is taken into account in friction coupling. Experimental waterhammer tests collected from a straight copper pipe-rig are used for model validation in terms of wave shape, timing and damping. Numerical results successfully reproduce laboratory measurements for realistic values of calibration parameters. The novelty of this paper is the presentation of a 1D FSI solver capable of describing the resistance to movement of anchor blocks and its effect on the transient pressure wave propagation in straight pipelines.

NDE in aerospace - Requirements for science, sensors and sense

NASA Technical Reports Server (NTRS)

Heyman, Joseph S.

1989-01-01

The complexity of modern nondestructive evaluation (NDE) arises from four main factors: quantitative measurement science, physical models for computational analysis, realistic interfacing with engineering decisions, and direct access to management priorities. Recent advances in the four factors of NDE are addressed. Physical models of acoustic propagation are presented that have led to the development of measurement technologies advancing the ability to assure that materials and structures will perform as designed. In addition, a brief discussion is given of current research for future mission needs such as smart structures that sense their own health. Such advances permit projects to integrate design for inspection into their plans, bringing NDE into engineering and management priorities. The measurement focus is on ultrasonics with generous case examples. Problem solutions highlighted include critical stress in fasteners, residual stress in steel, NDE laminography, and solid rocket motor NDE.

Three-dimensional baroclinic instability of a Hadley cell for small Richardson number

NASA Technical Reports Server (NTRS)

Antar, B. N.; Fowlis, W. W.

1983-01-01

For the case of a baroclinic flow whose Richardson number, Ri, is of order unity, a three-dimensional linear stability analysis is conducted on the basis of a model for a thin, horizontal, rotating fluid layer which is subjected to horizontal and vertical temperature gradients. The Hadley cell basic state and stability analysis are both based on the Navier-Stokes and energy equations, and perturbations possessing zonal, meridional, and vertical structures are considered. An attempt is made to extend the previous theoretical work on three-dimensional baroclinic instability for small Ri to a more realistic model involving the Prandtl and Ekman numbers, as well as to finite growth rates and a wider range of the zonal wavenumber. In general, it is found that the symmetric modes of maximum growth are not purely symmetric, but have a weak zonal structure.

Co-evolution of payoff strategy and interaction strategy in prisoner's dilemma game

NASA Astrophysics Data System (ADS)

Zhang, Kangjie; Cheng, Hongyan

2016-11-01

Co-evolutionary dynamical models, providing a realistic paradigm for investigating complex system, have been extensively studied. In this paper, the co-evolution of payoff strategy and interaction strategy is studied. Starting with an initial Gaussian distribution of payoff strategy r with the mean u and the variance q, we focus on the final distribution of the payoff strategy. We find that final distribution of the payoff strategy may display different structures depending on parameters. In the ranges u < - 1 and u > 3, the distribution displays a single-peak structure which is symmetric about r = u. The distribution manifests itself as a double-peak structure in the range - 1 < u < 3 although a fake three-peak structure shows up in range 1 < u < 2. The explanations on the formation of different types of payoff strategy distributions are presented.

Modeling cation/anion-water interactions in functional aluminosilicate structures.

PubMed

Richards, A J; Barnes, P; Collins, D R; Christodoulos, F; Clark, S M

1995-02-01

A need for the computer simulation of hydration/dehydration processes in functional aluminosilicate structures has been noted. Full and realistic simulations of these systems can be somewhat ambitious and require the aid of interactive computer graphics to identify key structural/chemical units, both in the devising of suitable water-ion simulation potentials and in the analysis of hydrogen-bonding schemes in the subsequent simulation studies. In this article, the former is demonstrated by the assembling of a range of essential water-ion potentials. These span the range of formal charges from +4e to -2e, and are evaluated in the context of three types of structure: a porous zeolite, calcium silicate cement, and layered clay. As an example of the latter, the computer graphics output from Monte Carlo computer simulation studies of hydration/dehydration in calcium-zeolite A is presented.

NASA/FAA general aviation crash dynamics program - An update

NASA Technical Reports Server (NTRS)

Hayduk, R. J.; Thomson, R. G.; Carden, H. D.

1979-01-01

Work in progress in the NASA/FAA General Aviation Crash Dynamics Program for the development of technology for increased crash-worthiness and occupant survivability of general aviation aircraft is presented. Full-scale crash testing facilities and procedures are outlined, and a chronological summary of full-scale tests conducted and planned is presented. The Plastic and Large Deflection Analysis of Nonlinear Structures and Modified Seat Occupant Model for Light Aircraft computer programs which form part of the effort to predict nonlinear geometric and material behavior of sheet-stringer aircraft structures subjected to large deformations are described, and excellent agreement between simulations and experiments is noted. The development of structural concepts to attenuate the load transmitted to the passenger through the seats and subfloor structure is discussed, and an apparatus built to test emergency locator transmitters in a realistic environment is presented.

Analysis of Students' Aptitude to Provide Meaning to Images that Represent Cellular Components at the Molecular Level

PubMed Central

Dahmani, Hassen-Reda; Schneeberger, Patricia

2009-01-01

The number of experimentally derived structures of cellular components is rapidly expanding, and this phenomenon is accompanied by the development of a new semiotic system for teaching. The infographic approach is shifting from a schematic toward a more realistic representation of cellular components. By realistic we mean artist-prepared or computer graphic images that closely resemble experimentally derived structures and are characterized by a low level of styling and simplification. This change brings about a new challenge for teachers: designing course instructions that allow students to interpret these images in a meaningful way. To determine how students deal with this change, we designed several image-based, in-course assessments. The images were highly relevant for the cell biology course but did not resemble any of the images in the teaching documents. We asked students to label the cellular components, describe their function, or both. What we learned from these tests is that realistic images, with a higher apparent level of complexity, do not deter students from investigating their meaning. When given a choice, the students do not necessarily choose the most simplified representation, and they were sensitive to functional indications embedded in realistic images. PMID:19723817

Design and validation of realistic breast models for use in multiple alternative forced choice virtual clinical trials

NASA Astrophysics Data System (ADS)

Elangovan, Premkumar; Mackenzie, Alistair; Dance, David R.; Young, Kenneth C.; Cooke, Victoria; Wilkinson, Louise; Given-Wilson, Rosalind M.; Wallis, Matthew G.; Wells, Kevin

2017-04-01

A novel method has been developed for generating quasi-realistic voxel phantoms which simulate the compressed breast in mammography and digital breast tomosynthesis (DBT). The models are suitable for use in virtual clinical trials requiring realistic anatomy which use the multiple alternative forced choice (AFC) paradigm and patches from the complete breast image. The breast models are produced by extracting features of breast tissue components from DBT clinical images including skin, adipose and fibro-glandular tissue, blood vessels and Cooper’s ligaments. A range of different breast models can then be generated by combining these components. Visual realism was validated using a receiver operating characteristic (ROC) study of patches from simulated images calculated using the breast models and from real patient images. Quantitative analysis was undertaken using fractal dimension and power spectrum analysis. The average areas under the ROC curves for 2D and DBT images were 0.51  ±  0.06 and 0.54  ±  0.09 demonstrating that simulated and real images were statistically indistinguishable by expert breast readers (7 observers); errors represented as one standard error of the mean. The average fractal dimensions (2D, DBT) for real and simulated images were (2.72  ±  0.01, 2.75  ±  0.01) and (2.77  ±  0.03, 2.82  ±  0.04) respectively; errors represented as one standard error of the mean. Excellent agreement was found between power spectrum curves of real and simulated images, with average β values (2D, DBT) of (3.10  ±  0.17, 3.21  ±  0.11) and (3.01  ±  0.32, 3.19  ±  0.07) respectively; errors represented as one standard error of the mean. These results demonstrate that radiological images of these breast models realistically represent the complexity of real breast structures and can be used to simulate patches from mammograms and DBT images that are indistinguishable from patches from the corresponding real breast images. The method can generate about 500 radiological patches (~30 mm  ×  30 mm) per day for AFC experiments on a single workstation. This is the first study to quantitatively validate the realism of simulated radiological breast images using direct blinded comparison with real data via the ROC paradigm with expert breast readers.

A multiphysics and multiscale model for low frequency electromagnetic direct-chill casting

NASA Astrophysics Data System (ADS)

Košnik, N.; Guštin, A. Z.; Mavrič, B.; Šarler, B.

2016-03-01

Simulation and control of macrosegregation, deformation and grain size in low frequency electromagnetic (EM) direct-chill casting (LFEMC) is important for downstream processing. Respectively, a multiphysics and multiscale model is developed for solution of Lorentz force, temperature, velocity, concentration, deformation and grain structure of LFEMC processed aluminum alloys, with focus on axisymmetric billets. The mixture equations with lever rule, linearized phase diagram, and stationary thermoelastic solid phase are assumed, together with EM induction equation for the field imposed by the coil. Explicit diffuse approximate meshless solution procedure [1] is used for solving the EM field, and the explicit local radial basis function collocation method [2] is used for solving the coupled transport phenomena and thermomechanics fields. Pressure-velocity coupling is performed by the fractional step method [3]. The point automata method with modified KGT model is used to estimate the grain structure [4] in a post-processing mode. Thermal, mechanical, EM and grain structure outcomes of the model are demonstrated. A systematic study of the complicated influences of the process parameters can be investigated by the model, including intensity and frequency of the electromagnetic field. The meshless solution framework, with the implemented simplest physical models, will be further extended by including more sophisticated microsegregation and grain structure models, as well as a more realistic solid and solid-liquid phase rheology.

Cellular and Network Mechanisms Underlying Information Processing in a Simple Sensory System

NASA Technical Reports Server (NTRS)

Jacobs, Gwen; Henze, Chris; Biegel, Bryan (Technical Monitor)

2002-01-01

Realistic, biophysically-based compartmental models were constructed of several primary sensory interneurons in the cricket cercal sensory system. A dynamic atlas of the afferent input to these cells was used to set spatio-temporal parameters for the simulated stimulus-dependent synaptic inputs. We examined the roles of dendritic morphology, passive membrane properties, and active conductances on the frequency tuning of the neurons. The sensitivity of narrow-band low pass interneurons could be explained entirely by the electronic structure of the dendritic arbors and the dynamic sensitivity of the SIZ. The dynamic characteristics of interneurons with higher frequency sensitivity required models with voltage-dependent dendritic conductances.

Development and Application of Agglomerated Multigrid Methods for Complex Geometries

NASA Technical Reports Server (NTRS)

Nishikawa, Hiroaki; Diskin, Boris; Thomas, James L.

2010-01-01

We report progress in the development of agglomerated multigrid techniques for fully un- structured grids in three dimensions, building upon two previous studies focused on efficiently solving a model diffusion equation. We demonstrate a robust fully-coarsened agglomerated multigrid technique for 3D complex geometries, incorporating the following key developments: consistent and stable coarse-grid discretizations, a hierarchical agglomeration scheme, and line-agglomeration/relaxation using prismatic-cell discretizations in the highly-stretched grid regions. A signi cant speed-up in computer time is demonstrated for a model diffusion problem, the Euler equations, and the Reynolds-averaged Navier-Stokes equations for 3D realistic complex geometries.

Radiative transfer to space through a precipitating cloud at multiple microwave frequencies. I - Model description. II - Results and analysis

NASA Technical Reports Server (NTRS)

Mugnai, Alberto; Smith, Eric A.

1988-01-01

The impact of time-dependent cloud microphysical structure on the transfer to space of passive microwave radiation is studied at several frequencies across the EHF and lower SHF portions of the microwave spectrum. The feasibility of using multichannel passive-microwave retrieval techniques to estimate precipitation from space-based platforms is examined. The model is described, and the results are assessed in conjunction with a Nimbus-7 SMMR case study of precipitation in an intense tropical Pacific storm. It is concluded that the effects of cloud liquid water content must be considered to obtain a realistic estimation and distribution of rainrates.

Neural dynamics in Parkinsonian brain: The boundary between synchronized and nonsynchronized dynamics

NASA Astrophysics Data System (ADS)

Park, Choongseok; Worth, Robert M.; Rubchinsky, Leonid L.

2011-04-01

Synchronous oscillatory dynamics is frequently observed in the human brain. We analyze the fine temporal structure of phase-locking in a realistic network model and match it with the experimental data from Parkinsonian patients. We show that the experimentally observed intermittent synchrony can be generated just by moderately increased coupling strength in the basal ganglia circuits due to the lack of dopamine. Comparison of the experimental and modeling data suggest that brain activity in Parkinson's disease resides in the large boundary region between synchronized and nonsynchronized dynamics. Being on the edge of synchrony may allow for easy formation of transient neuronal assemblies.

On the dynamical basis of the classification of normal galaxies

PubMed Central

Haass, J.; Bertin, G.; Lin, C. C.

1982-01-01

Some realistic galaxy models have been found to support discrete unstable spiral modes. Here, through the study of the relevant physical mechanisms and an extensive numerical investigation of the properties of the dominant modes in a wide class of galactic equilibria, we show how spiral structures are excited with different morphological features, depending on the properties of the equilibrium model. We identify the basic dynamical parameters and mechanisms and compare the resulting morphology of spiral modes with the actual classification of galaxies. The present study suggests a dynamical basis for the transition among various types and subclasses of normal and barred spiral galaxies. Images PMID:16593200

A Study of Effects of MultiCollinearity in the Multivariable Analysis

PubMed Central

Yoo, Wonsuk; Mayberry, Robert; Bae, Sejong; Singh, Karan; (Peter) He, Qinghua; Lillard, James W.

2015-01-01

A multivariable analysis is the most popular approach when investigating associations between risk factors and disease. However, efficiency of multivariable analysis highly depends on correlation structure among predictive variables. When the covariates in the model are not independent one another, collinearity/multicollinearity problems arise in the analysis, which leads to biased estimation. This work aims to perform a simulation study with various scenarios of different collinearity structures to investigate the effects of collinearity under various correlation structures amongst predictive and explanatory variables and to compare these results with existing guidelines to decide harmful collinearity. Three correlation scenarios among predictor variables are considered: (1) bivariate collinear structure as the most simple collinearity case, (2) multivariate collinear structure where an explanatory variable is correlated with two other covariates, (3) a more realistic scenario when an independent variable can be expressed by various functions including the other variables. PMID:25664257

A Study of Effects of MultiCollinearity in the Multivariable Analysis.

PubMed

Yoo, Wonsuk; Mayberry, Robert; Bae, Sejong; Singh, Karan; Peter He, Qinghua; Lillard, James W

2014-10-01

A multivariable analysis is the most popular approach when investigating associations between risk factors and disease. However, efficiency of multivariable analysis highly depends on correlation structure among predictive variables. When the covariates in the model are not independent one another, collinearity/multicollinearity problems arise in the analysis, which leads to biased estimation. This work aims to perform a simulation study with various scenarios of different collinearity structures to investigate the effects of collinearity under various correlation structures amongst predictive and explanatory variables and to compare these results with existing guidelines to decide harmful collinearity. Three correlation scenarios among predictor variables are considered: (1) bivariate collinear structure as the most simple collinearity case, (2) multivariate collinear structure where an explanatory variable is correlated with two other covariates, (3) a more realistic scenario when an independent variable can be expressed by various functions including the other variables.

State of the art in electromagnetic modeling for the Compact Linear Collider

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

Candel, Arno; Kabel, Andreas; Lee, Lie-Quan

SLAC's Advanced Computations Department (ACD) has developed the parallel 3D electromagnetic time-domain code T3P for simulations of wakefields and transients in complex accelerator structures. T3P is based on state-of-the-art Finite Element methods on unstructured grids and features unconditional stability, quadratic surface approximation and up to 6th-order vector basis functions for unprecedented simulation accuracy. Optimized for large-scale parallel processing on leadership supercomputing facilities, T3P allows simulations of realistic 3D structures with fast turn-around times, aiding the design of the next generation of accelerator facilities. Applications include simulations of the proposed two-beam accelerator structures for the Compact Linear Collider (CLIC) - wakefieldmore » damping in the Power Extraction and Transfer Structure (PETS) and power transfer to the main beam accelerating structures are investigated.« less

Response analysis of a nuclear containment structure with nonlinear soil-structure interaction under bi-directional ground motion

NASA Astrophysics Data System (ADS)

Kumar, Santosh; Raychowdhury, Prishati; Gundlapalli, Prabhakar

2015-06-01

Design of critical facilities such as nuclear power plant requires an accurate and precise evaluation of seismic demands, as any failure of these facilities poses immense threat to the community. Design complexity of these structures reinforces the necessity of a robust 3D modeling and analysis of the structure and the soil-foundation interface. Moreover, it is important to consider the multiple components of ground motion during time history analysis for a realistic simulation. Present study is focused on investigating the seismic response of a nuclear containment structure considering nonlinear Winkler-based approach to model the soil-foundation interface using a distributed array of inelastic springs, dashpots and gap elements. It is observed from this study that the natural period of the structure increases about 10 %, whereas the force demands decreases up to 24 % by considering the soil-structure interaction. Further, it is observed that foundation deformations, such as rotation and sliding are affected by the embedment ratio, indicating an increase of up to 56 % in these responses for a reduction of embedment from 0.5 to 0.05× the width of the footing.

Optimization of controllability and robustness of complex networks by edge directionality

NASA Astrophysics Data System (ADS)

Liang, Man; Jin, Suoqin; Wang, Dingjie; Zou, Xiufen

2016-09-01

Recently, controllability of complex networks has attracted enormous attention in various fields of science and engineering. How to optimize structural controllability has also become a significant issue. Previous studies have shown that an appropriate directional assignment can improve structural controllability; however, the evolution of the structural controllability of complex networks under attacks and cascading has always been ignored. To address this problem, this study proposes a new edge orientation method (NEOM) based on residual degree that changes the link direction while conserving topology and directionality. By comparing the results with those of previous methods in two random graph models and several realistic networks, our proposed approach is demonstrated to be an effective and competitive method for improving the structural controllability of complex networks. Moreover, numerical simulations show that our method is near-optimal in optimizing structural controllability. Strikingly, compared to the original network, our method maintains the structural controllability of the network under attacks and cascading, indicating that the NEOM can also enhance the robustness of controllability of networks. These results alter the view of the nature of controllability in complex networks, change the understanding of structural controllability and affect the design of network models to control such networks.

Fully-coupled aeroelastic simulation with fluid compressibility — For application to vocal fold vibration

PubMed Central

Yang, Jubiao; Wang, Xingshi; Krane, Michael; Zhang, Lucy T.

2017-01-01

In this study, a fully-coupled fluid–structure interaction model is developed for studying dynamic interactions between compressible fluid and aeroelastic structures. The technique is built based on the modified Immersed Finite Element Method (mIFEM), a robust numerical technique to simulate fluid–structure interactions that has capabilities to simulate high Reynolds number flows and handles large density disparities between the fluid and the solid. For accurate assessment of this intricate dynamic process between compressible fluid, such as air and aeroelastic structures, we included in the model the fluid compressibility in an isentropic process and a solid contact model. The accuracy of the compressible fluid solver is verified by examining acoustic wave propagations in a closed and an open duct, respectively. The fully-coupled fluid–structure interaction model is then used to simulate and analyze vocal folds vibrations using compressible air interacting with vocal folds that are represented as layered viscoelastic structures. Using physiological geometric and parametric setup, we are able to obtain a self-sustained vocal fold vibration with a constant inflow pressure. Parametric studies are also performed to study the effects of lung pressure and vocal fold tissue stiffness in vocal folds vibrations. All the case studies produce expected airflow behavior and a sustained vibration, which provide verification and confidence in our future studies of realistic acoustical studies of the phonation process. PMID:29527067

Uncertainty quantification and validation of 3D lattice scaffolds for computer-aided biomedical applications.

PubMed

Gorguluarslan, Recep M; Choi, Seung-Kyum; Saldana, Christopher J

2017-07-01

A methodology is proposed for uncertainty quantification and validation to accurately predict the mechanical response of lattice structures used in the design of scaffolds. Effective structural properties of the scaffolds are characterized using a developed multi-level stochastic upscaling process that propagates the quantified uncertainties at strut level to the lattice structure level. To obtain realistic simulation models for the stochastic upscaling process and minimize the experimental cost, high-resolution finite element models of individual struts were reconstructed from the micro-CT scan images of lattice structures which are fabricated by selective laser melting. The upscaling method facilitates the process of determining homogenized strut properties to reduce the computational cost of the detailed simulation model for the scaffold. Bayesian Information Criterion is utilized to quantify the uncertainties with parametric distributions based on the statistical data obtained from the reconstructed strut models. A systematic validation approach that can minimize the experimental cost is also developed to assess the predictive capability of the stochastic upscaling method used at the strut level and lattice structure level. In comparison with physical compression test results, the proposed methodology of linking the uncertainty quantification with the multi-level stochastic upscaling method enabled an accurate prediction of the elastic behavior of the lattice structure with minimal experimental cost by accounting for the uncertainties induced by the additive manufacturing process. Copyright © 2017 Elsevier Ltd. All rights reserved.

Realist complex intervention science: Applying realist principles across all phases of the Medical Research Council framework for developing and evaluating complex interventions

PubMed Central

Fletcher, Adam; Jamal, Farah; Moore, Graham; Evans, Rhiannon E.; Murphy, Simon; Bonell, Chris

2016-01-01

The integration of realist evaluation principles within randomised controlled trials (‘realist RCTs’) enables evaluations of complex interventions to answer questions about what works, for whom and under what circumstances. This allows evaluators to better develop and refine mid-level programme theories. However, this is only one phase in the process of developing and evaluating complex interventions. We describe and exemplify how social scientists can integrate realist principles across all phases of the Medical Research Council framework. Intervention development, modelling, and feasibility and pilot studies need to theorise the contextual conditions necessary for intervention mechanisms to be activated. Where interventions are scaled up and translated into routine practice, realist principles also have much to offer in facilitating knowledge about longer-term sustainability, benefits and harms. Integrating a realist approach across all phases of complex intervention science is vital for considering the feasibility and likely effects of interventions for different localities and population subgroups. PMID:27478401

Acceleration of the Fast Solar Wind by Solitary Waves in Coronal Holes

NASA Technical Reports Server (NTRS)

Ofman, Leon

2001-01-01

The purpose of this investigation is to develop a new model for the acceleration of the fast solar wind by nonlinear. time-dependent multidimensional MHD simulations of waves in solar coronal holes. Preliminary computational studies indicate that nonlinear waves are generated in coronal holes by torsional Alfv\\'{e}n waves. These waves in addition to thermal conduction may contribute considerably to the accelerate the solar wind. Specific goals of this proposal are to investigate the generation of nonlinear solitary-like waves and their effect on solar wind acceleration by numerical 2.5D MHD simulation of coronal holes with a broad range of plasma and wave parameters; to study the effect of random disturbances at the base of a solar coronal hole on the fast solar wind acceleration with a more advanced 2.5D MHD model and to compare the results with the available observations; to extend the study to a full 3D MHD simulation of fast solar wind acceleration with a more realistic model of a coronal hole and solar boundary conditions. The ultimate goal of the three year study is to model the, fast solar wind in a coronal hole, based on realistic boundary conditions in a coronal hole near the Sun, and the coronal hole structure (i.e., density, temperature. and magnetic field geometry,) that will become available from the recently launched SOHO spacecraft.

Dynamic 99mTc-MAG3 renography: images for quality control obtained by combining pharmacokinetic modelling, an anthropomorphic computer phantom and Monte Carlo simulated scintillation camera imaging

NASA Astrophysics Data System (ADS)

Brolin, Gustav; Sjögreen Gleisner, Katarina; Ljungberg, Michael

2013-05-01

In dynamic renal scintigraphy, the main interest is the radiopharmaceutical redistribution as a function of time. Quality control (QC) of renal procedures often relies on phantom experiments to compare image-based results with the measurement setup. A phantom with a realistic anatomy and time-varying activity distribution is therefore desirable. This work describes a pharmacokinetic (PK) compartment model for 99mTc-MAG3, used for defining a dynamic whole-body activity distribution within a digital phantom (XCAT) for accurate Monte Carlo (MC)-based images for QC. Each phantom structure is assigned a time-activity curve provided by the PK model, employing parameter values consistent with MAG3 pharmacokinetics. This approach ensures that the total amount of tracer in the phantom is preserved between time points, and it allows for modifications of the pharmacokinetics in a controlled fashion. By adjusting parameter values in the PK model, different clinically realistic scenarios can be mimicked, regarding, e.g., the relative renal uptake and renal transit time. Using the MC code SIMIND, a complete set of renography images including effects of photon attenuation, scattering, limited spatial resolution and noise, are simulated. The obtained image data can be used to evaluate quantitative techniques and computer software in clinical renography.

Acceleration of the Fast Solar Wind by Solitary Waves in Coronal Holes

NASA Technical Reports Server (NTRS)

Ofman, Leon

2000-01-01

The purpose of this investigation is to develop a new model for the acceleration of the fast solar wind by nonlinear, time-dependent multidimensional MHD simulations of waves in solar coronal holes. Preliminary computational studies indicate that solitary-like waves are generated in coronal holes nonlinearly by torsional Alfven waves. These waves in addition to thermal conduction may contribute considerably to the accelerate the solar wind. Specific goals of this proposal are to investigate the generation of nonlinear solitary-like waves and their effect on solar wind acceleration by numerical 2.5D MHD simulation of coronal holes with a broad range of plasma and wave parameters; to study the effect of random disturbances at the base of a solar coronal hole on the fast solar wind acceleration with a more advanced 2.5D MHD model and to compare the results with the available observations; to extend the study to a full 3D MHD simulation of fast solar wind acceleration with a more realistic model of a coronal hole and solar boundary conditions. The ultimate goal of the three year study is to model the fast solar wind in a coronal hole, based on realistic boundary conditions in a coronal hole near the Sun, and the coronal hole structure (i.e., density, temperature, and magnetic field geometry) that will become available from the recently launched SOHO spacecraft.

A modeling comparison of projection neuron- and neuromodulator-elicited oscillations in a central pattern generating network.

PubMed

Kintos, Nickolas; Nusbaum, Michael P; Nadim, Farzan

2008-06-01

Many central pattern generating networks are influenced by synaptic input from modulatory projection neurons. The network response to a projection neuron is sometimes mimicked by bath applying the neuronally-released modulator, despite the absence of network interactions with the projection neuron. One interesting example occurs in the crab stomatogastric ganglion (STG), where bath applying the neuropeptide pyrokinin (PK) elicits a gastric mill rhythm which is similar to that elicited by the projection neuron modulatory commissural neuron 1 (MCN1), despite the absence of PK in MCN1 and the fact that MCN1 is not active during the PK-elicited rhythm. MCN1 terminals have fast and slow synaptic actions on the gastric mill network and are presynaptically inhibited by this network in the STG. These local connections are inactive in the PK-elicited rhythm, and the mechanism underlying this rhythm is unknown. We use mathematical and biophysically-realistic modeling to propose potential mechanisms by which PK can elicit a gastric mill rhythm that is similar to the MCN1-elicited rhythm. We analyze slow-wave network oscillations using simplified mathematical models and, in parallel, develop biophysically-realistic models that account for fast, action potential-driven oscillations and some spatial structure of the network neurons. Our results illustrate how the actions of bath-applied neuromodulators can mimic those of descending projection neurons through mathematically similar but physiologically distinct mechanisms.

Near-Infrared Coloring via a Contrast-Preserving Mapping Model.

PubMed

Chang-Hwan Son; Xiao-Ping Zhang

2017-11-01

Near-infrared gray images captured along with corresponding visible color images have recently proven useful for image restoration and classification. This paper introduces a new coloring method to add colors to near-infrared gray images based on a contrast-preserving mapping model. A naive coloring method directly adds the colors from the visible color image to the near-infrared gray image. However, this method results in an unrealistic image because of the discrepancies in the brightness and image structure between the captured near-infrared gray image and the visible color image. To solve the discrepancy problem, first, we present a new contrast-preserving mapping model to create a new near-infrared gray image with a similar appearance in the luminance plane to the visible color image, while preserving the contrast and details of the captured near-infrared gray image. Then, we develop a method to derive realistic colors that can be added to the newly created near-infrared gray image based on the proposed contrast-preserving mapping model. Experimental results show that the proposed new method not only preserves the local contrast and details of the captured near-infrared gray image, but also transfers the realistic colors from the visible color image to the newly created near-infrared gray image. It is also shown that the proposed near-infrared coloring can be used effectively for noise and haze removal, as well as local contrast enhancement.