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At least 1,099 records · Page 61

NPLOT: an Interactive Plotting Program for NASTRAN Finite Element Models

The NPLOT (NASTRAN Plot) is an interactive computer graphics program for plotting undeformed and deformed NASTRAN finite element models. Developed at NASA's Goddard Space Flight Center, the program provides flexible element selection and grid point, ASET and SPC degree of freedom labelling. It is easy to use and provides a combination menu and command driven user interface. NPLOT also provides very fast hidden line and haloed line algorithms. The hidden line algorithm in NPLOT proved to be both very accurate and several times faster than other existing hidden line algorithms. A fast spatial bucket sort and horizon edge computation are used to achieve this high level of performance. The hidden line and the haloed line algorithms are the primary features that make NPLOT different from other plotting programs.

Jones, G. K.↗

How effective is the Brink–Axel hypothesis for astrophysical weak rates?

We explore the effectiveness of the Brink–Axel hypothesis (BAH) for the computation of stellar electron capture (EC) and β-decay (BD) rates, namely that the transition strength function depends only upon the transition energy and not upon the details of the initial state. For this purpose, we calculated Gamow–Teller (GT) strength distributions for a selection of sd-shell nuclides, using two different microscopic models, namely the proton–neutron quasiparticle random phase approximation and the full configuration-interaction shell model, taking into account the first 100 states of both the initial and final nuclides. The GT transition strengths among these levels evolve with initial state energy. These transition strength functions we folded into weak-interaction mediated rates in stellar matter, specifically EC and BD rates, for a range of densities 10 g cm –3 ≤ ρ ≤ 10 11 g cm –3 and range of temperatures 1 GK ≤ T ≤ 30 GK. When transitions from excited states were approximated using the BAH, augmented by so-called 'back-resonance' transitions, the rates were affected by up to three orders of magnitude or more at high temperatures and densities. Furthermore the BAH is not a reliable approximation for the calculation of stellar rates, especially in high temperature–density environments.

79 ASTRONOMY AND ASTROPHYSICS↗

Interactive Visual Study of Multiple Attributes Learning Model of X-Ray Scattering Images

Existing interactive visualization tools for deep learning are mostly applied to the training, debugging, and refinement of neural network models working on natural images. However, visual analytics tools are lacking for the specific application of x-ray image classification with multiple structural attributes. In this paper, we present an interactive system for domain scientists to visually study the multiple attributes learning models applied to x-ray scattering images. It allows domain scientists to interactively explore this important type of scientific images in embedded spaces that are defined on the model prediction output, the actual labels, and the discovered feature space of neural networks. Users are allowed to flexibly select instance images, their clusters, and compare them regarding the specified visual representation of attributes. The exploration is guided by the manifestation of model performance related to mutual relationships among attributes, which often affect the learning accuracy and effectiveness. The system thus supports domain scientists to improve the training dataset and model, find questionable attributes labels, and identify outlier images or spurious data clusters. Case studies and scientists feedback demonstrate its functionalities and usefulness.

97 MATHEMATICS AND COMPUTING↗

Rates for neutron-capture reactions on tungsten isotopes in iron meteorites

High-precision W isotopic analyses by Harper and Jacobsen indicate the W-182/W-183 ratio in the Toluca iron meteorite is shifted by -(3.0 +/- 0.9) x 10(exp -4) relative to a terrestrial standard. Possible causes of this shift are neutron-capture reactions on W during Toluca's approximately 600-Ma exposure to cosmic ray particles or radiogenic growth of W-182 from 9-Ma Hf-182 in the silicate portion of the Earth after removal of W to the Earth's core. Calculations for the rates of neutron-capture reactions on W isotopes were done to study the first possibility. The LAHET Code System (LCS) which consists of the Los Alamos High Energy Transport (LAHET) code and the Monte Carlo N-Particle(MCNP) transport code was used to numerically simulate the irradiation of the Toluca iron meteorite by galactic-cosmic-ray (GCR) particles and to calculate the rates of W(n, gamma) reactions. Toluca was modeled as a 3.9-m-radius sphere with the composition of a typical IA iron meteorite. The incident GCR protons and their interactions were modeled with LAHET, which also handled the interactions of neutrons with energies above 20 MeV. The rates for the capture of neutrons by W-182, W-183, and W-186 were calculated using the detailed library of (n, gamma) cross sections in MCNP. For this study of the possible effect of W(n, gamma) reactions on W isotope systematics, we consider the peak rates. The calculated maximum change in the normalized W-182/W-183 ratio due to neutron-capture reactions cannot account for more than 25% of the mass 182 deficit observed in Toluca W.

Masarik, J.↗

Studying Host-Pathogen Interactions In 3-D: Organotypic Models For Infectious Disease And Drug Development

Representative, reproducible and high-throughput models of human cells and tissues are critical for a meaningful evaluation of host-pathogen interactions and are an essential component of the research developmental pipeline. The most informative infection models - animals, organ explants and human trials - are not suited for extensive evaluation of pathogenesis mechanisms and screening of candidate drugs. At the other extreme, more cost effective and accessible infection models such as conventional cell culture and static co-culture may not capture physiological and three-dimensional aspects of tissue biology that are important in assessing pathogenesis, and effectiveness and cytotoxicity of therapeutics. Our lab has used innovative bioengineering technology to establish biologically meaningful 3-D models of human tissues that recapitulate many aspects of the differentiated structure and function of the parental tissue in vivo, and we have applied these models to study infectious disease. We have established a variety of different 3-D models that are currently being used in infection studies - including small intestine, colon, lung, placenta, bladder, periodontal ligament, and neuronal models. Published work from our lab has shown that our 3-D models respond to infection with bacterial and viral pathogens in ways that reflect the infection process in vivo. By virtue of their physiological relevance, 3-D cell cultures may also hold significant potential as models to provide insight into the neuropathogenesis of HIV infection. Furthermore, the experimental flexibility, reproducibility, cost-efficiency, and high throughput platform afforded by these 3-D models may have important implications for the design and development of drugs with which to effectively treat neurological complications of HIV infection.

Nickerson, Cheryl A.↗

Phase-field model of deformation twin-grain boundary interactions in hexagonal systems

Here, a phase-field model for describing dynamic interactions between deformation twins and grain boundaries in a hexagonal close packed (HCP) metal is established. It is applied to simulating the coupled evolution mechanisms of grains and twins in magnesium (Mg) by probing the transmission of $\{10\bar{1}2\}$ deformation twins across grain boundaries. We analyze the effect of the strain relaxation near a grain boundary, which is related to the geometric compatibility arising from the misorientation angle between adjoining grains. Phase-field simulations demonstrate that twin transmission across a grain boundary into a neighboring grain leads to grain boundary migration towards the neighboring grain with a reduced grain boundary width. The preferred nucleation site of new twin variant in the neighboring grain is related to the elastic interaction energy distribution. These predicted transmission behaviors agree well with existing experimental observations and molecular dynamics simulations. By analyzing set of systematic phase-field simulation results, we establish a rotation-angle-related twin variant selection rule for analyzing the transmission of $\{10\bar{1}2\}$ deformation twins across grain boundaries in Mg and its alloys.

36 MATERIALS SCIENCE↗

Turbulence modeling in shock wave/turbulent boundary layer interactions

The research performed was an experimental program to help develop turbulence models for shock wave boundary layer interactions. The measurements were taken in a Mach 3, 16 deg compression corner interaction, at a unit Reynolds number of 63 x 10(exp 6)/m. The data consisted of heat transfer data taken upstream and downstream of the interaction, hot wire measurements of the instantaneous temperature and velocity fluctuations to verify the Strong Reynolds Analogy, and single- and double-pulsed Rayleigh scattering images to study the development of the instantaneous shock/turbulence interaction.

Smits, A. J.↗

Biophysical model of eelgrass and water quality in Coos Bay, OR shows greater mitigation potential for ocean acidification than hypoxia

Seagrass beds provide important ecosystem services and are valued, in part, for their potential to mediate stressors such as ocean acidification and hypoxia (OAH) for sensitive species. However, the susceptibility of seagrasses to anthropogenic impacts and recent declines motivate the need to better understand the drivers of seagrass and the water quality consequences that occur with variation in seagrass abundance. To meet this need, we leveraged existing monitoring data (water quality and seagrass), hydrodynamic circulation model, and biogeochemical model framework with seagrass submodel, to produce a biophysical model of Coos Bay estuary, Oregon, U.S. The model includes biogeochemical processes involving water quality, plankton, seagrass, and sediment-water interactions. Ecosystem models like this are useful for evaluating complex estuarine systems because they allow us to extend our understanding of system dynamics beyond existing observations and perform experiments to identify the processes driving observed patterns. We used the biophysical model of Coos Bay to evaluate the dynamics of water quality and native eelgrass (Zostera marina) under three eelgrass abundance scenarios (zero eelgrass, current extent, and maximum observed extent) to elucidate the relationship between eelgrass and OAH. Including eelgrass in the Coos Bay model produced results that more closely resembled water quality observations - dissolved oxygen (DO) and pH were more dynamic in simulations with eelgrass, often having both higher highs and lower lows. While there were some areas of the estuary where DO improved with the addition of eelgrass to the model there was overall a small net increase in harmful DO conditions (based on a salmon physiological threshold). In contrast, ocean acidification conditions, pH and calcium carbonate saturation state for aragonite (Ω), were improved (based on oyster requirements) with the addition of eelgrass - although the magnitude of improvement differed seasonally and spatially. Our new model represents a useful tool - one which accounts for and controls the relevant physical and biogeochemical processes - to evaluate conditions that confer resilience or enhance vulnerability to OAH in an important Pacific Northwest coastal estuary and results can inform the OAH-related dynamics occurring in other eastern boundary current estuaries.

FVCOM-ICM↗

Model-based analysis of control/display interaction in the hover task

The effect of Control/Display interaction in the hover task is analyzed using an optimal control approach to modeling pilot control behavior. The control/display configurations considered are those previously evaluated in a flight research program. The experimental data-base is reviewed and the procedure for modeling the task and the displayed information is presented in detail. All model-based results, time-domain as well as frequency-domain, are found to correlate extremely well with the subjective pilot ratings and comments. Time-domain measures consist of root mean-square errors and control inputs, attention allocation to displayed quantities, and magnitudes of task objective function. Frequency-domain measures include bandwidth, stability margins, and pilot phase compensation. Results are also shown to agree with previous findings on task interference in multi-axis tasks.

Schmidt, David K.↗

Interacting winds and the shaping of planetary nebulae

Using two-dimensional hydrodynamics, the problem of shaping of planetary nebulae by the interacting winds model is studied. The shock structure is obtained and it is shown that interacting winds are capable of producing morphologies similar to the ones observed in planetary nebulae, provided that a density contrast exists between the equatorial and polar directions. This confirms recent suggestions by Balick. Mechanisms that can produce the required density contrast are discussed and it is shown that binary central stars provide the most natural mechanism, especially via common envelope evolution. It is not yet entirely clear whether stellar rotation is sufficient to generate the required contrast in the case of single central stars.

Soker, Noam↗

Interactive data exploration and particle tracking for general circulation models

The SCENE environment for interactive visualization of complex data sets is discussed. This environment is used to create tools for graphical exploration of atmospheric flow models. These tools may be extended by the user in a seamless manner, so that no programming is required. A module for accurately tracing field lines and particle trajectories in SCENE is presented. This is used to examine the flowfield qualitatively with streamlines and pathlines and to identify critical points in the velocity field. The paper also describes a visualization tool for general circulation models on which the primary features of the environment are demonstrated.

Rosenbaum, R. I.↗

On the role of the magnetic field in the solar wind interaction with Venus - Expectations versus observations

Observations of the magnetic field near Venus suggest that elements of three different models (direct interaction, tangential discontinuity, magnetic barrier) are present. A bow shock is found to occur at an altitude of about 0.3 Venus radii at the subsolar point. The compression of the decelerated solar wind plasma behind the bow shock causes interplanetary field lines to 'pile up'. The magnetic field inside the bow shock increases from approximately twice the IMF strength at the bow shock to values in the range of approximately 40-100 gammas at altitudes between about 200 and 1,200 km. The maximum value of the piled up field, which is correlated with the dynamic pressure of the solar wind outside the bow shock, is found at lower altitudes for larger field strengths. Just Venus-ward of the maximum field, the pressure of the cold plasma increases to a level balancing the pressure of the external magnetic field. Hence, to a first approximation, the ionosphere has a diamagnetic response excluding the magnetosheath field. However, strong magnetic fields are found at times throughout the ionosphere.

Luhmann, J. G.↗

An assessment of viscous effects in computational simulation of benign and burst vortex flows on generic fighter wind-tunnel models using TEAM code

Vortex flows on a twin-tail and a single-tail modular transonic vortex interaction (MTVI) model, representative of a generic fighter configuration, are computationally simulated in this study using the Three-dimensional Euler/Navier-Stokes Aerodynamic Method (TEAM). The primary objective is to provide an assessment of viscous effects on benign (10 deg angle of attack) and burst (35 deg angle of attack) vortex flow solutions. This study was conducted in support of a NASA project aimed at assessing the viability of using Euler technology to predict aerodynamic characteristics of aircraft configurations at moderate-to-high angles of attack in a preliminary design environment. The TEAM code solves the Euler and Reynolds-average Navier-Stokes equations on patched multiblock structured grids. Its algorithm is based on a cell-centered finite-volume formulation with multistage time-stepping scheme. Viscous effects are assessed by comparing the computed inviscid and viscous solutions with each other and experimental data. Also, results of Euler solution sensitivity to grid density and numerical dissipation are presented for the twin-tail model. The results show that proper accounting of viscous effects is necessary for detailed design and optimization but Euler solutions can provide meaningful guidelines for preliminary design of flight vehicles which exhibit vortex flows in parts of their flight envelope.

Kinard, Tim A.↗

Modeling of the Convection and Interaction of Ring Current, Plasmaspheric and Plasma Sheet Plasmas in the Inner Magnetosphere

Distinctive sources of ions reside in the plasmasphere, plasmasheet, and ring current regions at discrete energies constitute the major plasma populations in the inner/middle magnetosphere. They contribute to the electrodynamics of the ionosphere-magnetosphere system as important carriers of the global current system, in triggering; geomagnetic storm and substorms, as well as critical components of plasma instabilities such as reconnection and Kelvin-Helmholtz instability at the magnetospheric boundaries. Our preliminary analysis of in-situ measurements shoves the complexity of the plasmas pitch angle distributions at particularly the cold and warm plasmas, vary dramatically at different local times and radial distances from the Earth in response to changes in solar wind condition and Dst index. Using an MHD-ring current coupled code, we model the convection and interaction of cold, warm and energetic ions of plasmaspheric, plasmasheet, and ring current origins in the inner magnetosphere. We compare our simulation results with in-situ and remotely sensed measurements from recent instrumentation on Geotail, Cluster, THEMIS, and TWINS spacecraft.

Fok, Mei-Ching↗

Microbially mediated nitrification improves modeled temperate forest responses to declining nitrogen deposition

As nitrogen deposition declines across the US, uncertainty remains in whether temperate forests will continue to sequester carbon. This uncertainty is amplified by ecosystem models that inaccurately capture the microbial mechanisms that drive soil carbon sequestration and nitrogen loss. Further, even soil process models that represent decomposer microbes and better capture soil carbon retention under nitrogen deposition broadly underrepresent microbial nitrogen transformations. To address this limitation, we leveraged three decades of biogeochemical cycling data from a whole-watershed nitrogen fertilization experiment to incorporate microbially-driven nitrification in the FUN-CORPSE (Fixation and Uptake of Nitrogen-Carbon, Organisms, Rhizosphere, and Protection in the Soil Environment) model. Our objectives include: 1) Reproducing key ecosystem responses to fertilization, 2) Integrating microbially-explicit nitrification in FUN-CORPSE, and 3) Assessing modeled soil C and N under projected N deposition shifts. FUN-CORPSE accurately represented soil C and streamwater N losses under ambient N deposition and captured how fertilization induced a 25 % decline in plant C cost of N acquisition, reducing decomposition and increasing soil C. Furthermore, with microbially-explicit nitrification, FUN-CORPSE captured the 100 % increase in nitrification rates and the 50 % increase in streamwater nitrate loss under N fertilization. Specifically, incorporating microbial nitrification improved modeled streamwater N leaching from R 2 = 0.01 to R 2 = 0.57. Under declining N deposition, FUN-CORPSE simulates that N losses recover more quickly than soil C pools. However, the predicted return of soil C to pre-fertilized levels suggests that additional C sequestered due to N deposition may be vulnerable to loss over the next century.

Microbial nitrification model↗

Three-Dimensional Ultrastructure of Arabidopsis Cotyledons Infected with Colletotrichum higginsianum

We used serial block-face scanning electron microscopy (SBF-SEM) to study the host–pathogen interface between Arabidopsis cotyledons and the hemibiotrophic fungus Colletotrichum higginsianum. By combining high-pressure freezing and freeze-substitution with SBF-SEM, followed by segmentation and reconstruction of the imaging volume using the freely accessible software IMOD, we created 3D models of the series of cytological events that occur during the Colletotrichum–Arabidopsis susceptible interaction. We found that the host cell membranes underwent massive expansion to accommodate the rapidly growing intracellular hypha. As the fungal infection proceeded from the biotrophic to the necrotrophic stage, the host cell membranes went through increasing levels of disintegration culminating in host cell death. Intriguingly, we documented autophagosomes in proximity to biotrophic hyphae using transmission electron microscopy (TEM) and a concurrent increase in autophagic flux between early to mid/late biotrophic phase of the infection process. Occasionally, we observed osmiophilic bodies in the vicinity of biotrophic hyphae using TEM only and near necrotrophic hyphae under both TEM and SBF-SEM. Overall, we established a method for obtaining serial SBF-SEM images, each with a lateral ( x-y) pixel resolution of 10 nm and an axial ( z) resolution of 40 nm, that can be reconstructed into interactive 3D models using the IMOD. Application of this method to the Colletotrichum–Arabidopsis pathosystem allowed us to more fully understand the spatial arrangement and morphological architecture of the fungal hyphae after they penetrate epidermal cells of Arabidopsis cotyledons and the cytological changes the host cell undergoes as the infection progresses toward necrotrophy. [Formula: see text] Copyright © 2024 The Author(s). This is an open access article distributed under the CC BY 4.0 International license .

Biochemistry & Molecular Biology↗