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At least 289 records · Page 16

Hyperspectral Mapping of the Invasive Species Pepperweed and the Development of a Habitat Suitability Model

Mapping and predicting the spatial distribution of invasive plant species is central to habitat management, however difficult to implement at landscape and regional scales. Remote sensing techniques can reduce the impact field campaigns have on these ecologically sensitive areas and can provide a regional and multi-temporal view of invasive species spread. Invasive perennial pepperweed (Lepidium latifolium) is now widespread in fragmented estuaries of the South San Francisco Bay, and is shown to degrade native vegetation in estuaries and adjacent habitats, thereby reducing forage and shelter for wildlife. The purpose of this study is to map the present distribution of pepperweed in estuarine areas of the South San Francisco Bay Salt Pond Restoration Project (Alviso, CA), and create a habitat suitability model to predict future spread. Pepperweed reflectance data were collected in-situ with a GER 1500 spectroradiometer along with 88 corresponding pepperweed presence and absence points used for building the statistical models. The spectral angle mapper (SAM) classification algorithm was used to distinguish the reflectance spectrum of pepperweed and map its distribution using an image from EO-1 Hyperion. To map pepperweed, we performed a supervised classification on an ASTER image with a resulting classification accuracy of 71.8%. We generated a weighted overlay analysis model within a geographic information system (GIS) framework to predict areas in the study site most susceptible to pepperweed colonization. Variables for the model included propensity for disturbance, status of pond restoration, proximity to water channels, and terrain curvature. A Generalized Additive Model (GAM) was also used to generate a probability map and investigate the statistical probability that each variable contributed to predict pepperweed spread. Results from the GAM revealed distance to channels, distance to ponds and curvature were statistically significant (p < 0.01) in determining the locations of suitable pepperweed habitats.

Pepperweed↗

Computational models of direct and indirect X‐ray breast imaging detectors for in silico trials

Abstract Background To facilitate in silico studies that investigate digital mammography (DM) and breast tomosynthesis (DBT), models replicating the variety in imaging performance of the DM and DBT systems, observed across manufacturers are needed. Purpose The main purpose of this work is to develop generic physics models for direct and indirect detector technology used in commercially available systems, with the goal of making them available open source to manufacturers to further tweak and develop the exact in silico replicas of their systems. Methods We recently reported on an in silico version of the SIEMENS Mammomat Inspiration DM/DBT system using an open‐source GPU‐accelerated Monte Carlo x‐ray imaging simulation code (MC‐GPU). We build on the previous version of the MC‐GPU codes to mimic the imaging performances of two other Food and Drug Administration (FDA)‐approved DM/DBT systems, such as Hologic Selenia Dimensions (HSD) and the General Electric Senographe Pristina (GSP) systems. In this work, we developed a hybrid technique to model the optical spread and signal crosstalk observed in the GSP and HSD systems. MC simulations are used to track each x‐ray photon till its first interaction within the x‐ray detector. On the other hand, the signal spread in the x‐ray detectors is modeled using previously developed analytical equations. This approach allows us to preserve the modeling accuracy offered by MC methods in the patient body, while speeding up secondary carrier transport (either electron–hole pairs or optical photons) using analytical equations in the detector. The analytical optical spread model for the indirect detector includes the depth‐dependent spread and collection of optical photons and relies on a pre‐computed set of point response functions that describe the optical spread as a function of depth. To understand the capabilities of the computational x‐ray detector models, we compared image quality metrics like modulation transfer function (MTF), normalized noise power spectrum (NNPS), and detective quantum efficiency (DQE), simulated with our models against measured data. Please note that the purpose of these comparisons with measured data would be to gauge if the model developed as part of this work could replicate commercially used direct and indirect technology in general and not to achieve perfect fits with measured data. Results We found that the simulated image quality metrics such as MTF, NNPS, and DQE were in reasonable agreement with experimental data. To demonstrate the imaging performance of the three DM/DBT systems, we integrated the detector models with the VICTRE pipeline and simulated DM images of a fatty breast model containing a spiculated mass and a calcium oxalate cluster. In general, we found that the images generated using the indirect model appeared more blurred with a different noise texture and contrast as compared to the systems with direct detectors. Conclusions We have presented computational models of three commercially available FDA‐approved DM/DBT systems, which implement both direct and indirect detector technology. The updated versions of the MC‐GPU codes that can be used to replicate three systems are available in open source format through GitHub.

Sengupta, Aunnasha↗

Turbulence spreading effects on the ELM size and SOL width

BOUT++ turbulence simulations were performed to investigate the impact of turbulence spreading on the edge localized mode (ELM) size and divertor heat flux width (λ q ) broadening in small ELM regimes. Here, this study is motivated by EAST experiments. BOUT++ linear simulations of a pedestal radial electric field (E r ) scan show that the dominant toroidal number mode (n) shifts from high-n to low-n, with a narrow mode spectrum, and the maximum linear growth rate increases as the pedestal E r well deepens. The nonlinear simulations show that as the net E × B pedestal flow increases, the pressure fluctuation level and its inward penetration beyond the top of the pedestal both increase. This leads to a transition from small ELMs to large ELMs. Both inward and outward turbulence spreading are sensitive to the scrape-off-layer (SOL) plasma profiles. The inward turbulence spreading increases for the steep SOL profiles, leading to increasing pedestal energy loss in the small ELM regime. The SOL width (λ q ) is significantly broadened progressing from the ELM-free to small ELM regime, due to the onset of strong radial turbulent transport. The extent of the SOL width (λ q ) broadening depends strongly on outward turbulence spreading. The fluctuation energy intensity flux Γ ε at the separatrix can be enhanced by increasing either pedestal E r flow shear or local SOL pressure gradient. The λ q is broadened as the fluctuation energy intensity flux Γ ε at the last close flux surface (LCFS) increases. Local SOL E × B flow shear will restrain outward turbulence spreading and the associated heat flux width broadening. Operating in H-mode with small ELMs has the potential to solve two critical problems: reducing the ELM size and broadening the SOL width.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Pressurized DNA state inside herpes capsids—A novel antiviral target

Drug resistance in viruses represents one of the major challenges of healthcare. As part of an effort to provide a treatment that avoids the possibility of drug resistance, we discovered a novel mechanism of action (MOA) and specific compounds to treat all nine human herpesviruses and animal herpesviruses. The novel MOA targets the pressurized genome state in a viral capsid, “turns off” capsid pressure, and blocks viral genome ejection into a cell nucleus, preventing viral replication. This work serves as a proof-of-concept to demonstrate the feasibility of a new antiviral target—suppressing pressure-driven viral genome ejection —that is likely impervious to developing drug resistance. This pivotal finding presents a platform for discovery of a new class of broad-spectrum treatments for herpesviruses and other viral infections with genome-pressure-dependent replication. A biophysical approach to antiviral treatment such as this is also a vital strategy to prevent the spread of emerging viruses where vaccine development is challenged by high mutation rates or other evasion mechanisms.

59 BASIC BIOLOGICAL SCIENCES↗

Evaporation Sub-model Development for Volume of Fluid (eVOF) Method Applicable to Spray-Wall Interaction Including Film Characteristics with Validation at High Pressure and Temperature Conditions (Final Report)

Internal combustion engines have seen a great evolution over the last several decades through application of high pressure direct injection, multiple injections, and other technologies to reduced fuel consumption, NOx, and PM. Although combustion systems with advanced injection strategies have been studied extensively, there exists a significant fundamental knowledge gap on the fuel-spray interactions with the piston surface and chamber walls. Advanced computational codes validated with experimental techniques have to be developed for accurate representation of the drop impingement, fuel film formation, and vaporization. Current engine CFD spray models utilize a Lagrangian framework for modeling which lacks critical considerations of the physics pertaining to these interactions and thus requiring extensive parameterization, tuning and validation. The team from Michigan Technological University, University of Massachusetts Dartmouth, and Argonne National Laboratory is composed of experts in sprays, combustion, engines and CFD with a wide spectrum of knowledge including specific expertise in the area under consideration. In the proposed work, a VOF modeling approach has been adopted for the spray-wall interaction, film formation and spreading, and vaporization. With the inclusion of a vaporization submodel, a more predictive and accurate simulation of the spray-film was performed without extensive need of parameterization and tuning. Extensive experimentation of the spray-wall interaction under the range of conditions matching the thermodynamic and surface temperatures that occur in diesel and gasoline engines were conducted to validate the SWI submodels and for development of the evaporation sub-model, which has been implemented in the Converge software.

42 ENGINEERING↗

Coherent Detector for Near-Angle Scattering and Polarization Characterization of Telescope Mirror Coatings

A report discusses the difficulty of measuring scattering properties of coated mirrors extremely close to the specular reflection peak. A prototype Optical Hetero dyne Near-angle Scatterometer (OHNS) was developed. Light from a long-coherence-length (>150 m) 532-nm laser is split into two arms. Acousto-optic modulators frequency shift the sample and reference beams, establishing a fixed beat frequency between the beams. The sample beam is directed at very high f/# onto a mirror sample, and the point spread function (PSF) formed after the mirror sample is scanned with a pinhole. This light is recombined by a non-polarizing beam splitter and measured through heterodyne detection with a spectrum analyzer. Polarizers control the illuminated and analyzed polarization states, allowing the polarization dependent scatter to be measured. The bidirectional reflective or scattering distribution function is normally measured through use of a scattering goniometer instrument. The instrumental beam width (collection angle span) over which the scatterometer responds is typically many degrees. The OHNS enables measurement at angles as small as the first Airy disk diameter.

Macenka, Steven A.↗

Method of detecting system function by measuring frequency response

Real-time battery impedance spectrum is acquired using a one-time record. Fast Summation Transformation (FST) is a parallel method of acquiring a real-time battery impedance spectrum using a one-time record that enables battery diagnostics. An excitation current to a battery is a sum of equal amplitude sine waves of frequencies that are octave harmonics spread over a range of interest. A sample frequency is also octave and harmonically related to all frequencies in the sum. The time profile of this signal has a duration that is a few periods of the lowest frequency. The voltage response of the battery, average deleted, is the impedance of the battery in the time domain. Since the excitation frequencies are known and octave and harmonically related, a simple algorithm, FST, processes the time record by rectifying relative to the sine and cosine of each frequency. Another algorithm yields real and imaginary components for each frequency.

Morrison, John L.↗

Analysis of turbulent underexpanded jets. II - Shock noise features using SCIPVIS

SCIPVIS, the computational model discussed by Dash et al. (1985), is assessed in predicting the complicated flow structure associated with shock-containing plumes. In addition, the analysis in this study examines this code's applicability as a basic part of a program for estimating broadband shock noise radiation. The results of this study show that excellent agreement exists between predicted and measured static pressure distributions for both underexpanded and overexpanded flow cases considered. Of the three turbulence closure models incorporated in the SCIPVIS code, the kW model of Spalding produces the most uniform agreement with measurement. The k-epsilon-2 model of Launder consistently overestimates plume spreading for supersonic jets with exit Mach numbers in the 1-2 range. Dash's (1983) k-epsilon-2-cc, compressibility-corrected version of Launder's model underestimates plume spreading. Good qualitative agreement was also obtained between the measured longitudinal turbulence intensity and that predicted by the code for the same trial case. Comparison of measured and predicted broadband shock noise spectrum peak values were found to be in excellent agreement. This utilized a variant of the Harper-Bourne and Fisher (1973) phase-array model: the effective shock spacing was reinterpreted as the value of the end of the plume potential core, determined herein by the SCIPVIS code.

Seiner, J. M.↗

Simulations of electron beam excited modes in the high-altitude magnetosphere

Excitation of waves by electron distributions consisting of hot, beam, and cold populations is investigated theoretically and with the help of particle simulations. The main modes excited include the upper hybrid oscillation for nearly perpendicular propagation; the whistler mode at oblique angles, which becomes the plasma two-stream oscillation for parallel propagation; and the electron acoustic mode for nearly parallel propagation. The whistler mode, excited by thermal fluctuation enhancement, has a broad range of wave numbers and quasi-linearly decreases the beam slope, while the electron acoustic mode, which is linearly unstable, has a narrow spread in phase velocities and traps the beam and the warm electrons forming a double humped distribution. Both modes contribute to forming a tail in the cold electron distribution. The resulting wave spectrum is discussed in the context of DE 1 observations.

Roth, I.↗

X Persei: The X-Ray Halo and Spectrum of a High-Latitude X-Ray Binary

The observations were completed on February 25,2003. Although the source was in the FOV for 31.4 ksec, only 18.2 ksec of data were usable due to a strong flare in the first part of the observations. We have extracted the X-ray halo from the good portion of the data, and were then faced with the problem of calibrating the far-off-axis point spread function, which is needed only for X-ray halo analysis; the same problem affected Chandra halo observations. We used data from 3C273, MCG 6-30-15, LMC X-1, and Her X-1 to measure the PSF, and found that it is reasonably well fit with a power law of the form PSF(theta) = A theta^-G, where A = 0.0034 arcmin^-2, and G = 3.05 for energies between 1-4 keV. This suggests there are fewer large dust grains along the When fitting the spectrum of X Persei, we found NH = 3e21 cm^-2, as expected. However, the X-ray halo (using a Mathis, Rumpl, Nordsieck 1977 dust model) required at most a column density of 1.4+/-0.1 e21 cm^-2; other models required sightline to X Per than would have been expected. In addition, a smoothly distributed dust model fit the observations better than a single cloud model, also against our expectations. We are in the process of writing a paper to be submitted to ApJ with these results, and will also present them at the 2004 HEAD meeting in New Orleans.

Mushotzky, Richard↗

Evaporation Submodel Development for Volume of Fluid (eVOF) Method Applicable to Spray-Wall Interaction Including Film Characteristics with Validation at High Pressure and Temperature Conditions

Internal combustion engines have seen a great evolution over the last several decades through application of high pressure direct injection, multiple injections, and other technologies to reduced fuel consumption, NOx, and PM. Although combustion systems with advanced injection strategies have been studied extensively, there exists a significant fundamental knowledge gap on the fuel-spray interactions with the piston surface and chamber walls. Advanced computational codes validated with experimental techniques have to be developed for accurate representation of the drop impingement, fuel film formation, and vaporization. Current engine CFD (Computational Fluid Dynamics) spray models utilize a Lagrangian framework for modeling which lacks critical considerations of the physics pertaining to these interactions and thus requiring extensive parameterization, tuning and validation. The team from Michigan Technological University, University of Massachusetts Dartmouth, and Argonne National Laboratory is composed of experts in sprays, combustion, engines and CFD with a wide spectrum of knowledge including specific expertise in the area under consideration. In the proposed work, a VOF (Volume of Fluid) modeling approach has been adopted for the spray-wall interaction, film formation and spreading, and vaporization. With the inclusion of a vaporization submodel, a more predictive and accurate simulation of the spray-film was performed without extensive need of parameterization and tuning. Extensive experimentation of the spray-wall interaction under the range of conditions matching the thermodynamic and surface temperatures that occur in diesel and gasoline engines were conducted to validate the SWI submodels and for development of the evaporation submodel, which has been implemented in the flow solver.

42 ENGINEERING↗

Slit Function Measurement of An Imaging Spectrograph Using Fourier Transform Techniques

Knowledge of a spectrograph slit function is necessary to interpret the unresolved lines in an observed spectrum. A theoretical slit function can be calculated from the sizes of the entrance slit, the detector aperture when it functions as an exit slit, the dispersion characteristic of the disperser, and the point spread function of the spectrograph. A measured slit function is preferred to the theoretical one for the correct interpretation of the spectral data. In a scanning spectrometer with a single exit slit, the slit function is easily measured. In a fixed grating/or disperser spectrograph, illuminating the entrance slit with a near monochromatic light from a pre-monochrmator or a tunable laser and varying the wavelength of the incident light can measure the slit function. Even though the latter technique had been used successfully for the slit function measurements, it had been very laborious and it would be prohibitive to an imaging spectrograph or a multi-object spectrograph that has a large field of view. We explore an alternative technique that is manageable for the measurements. In the proposed technique, the imaging spectrograph is used as a detector of a Fourier transform spectrometer. This method can be applied not only to an IR spectrograph but also has a potential to a visible/UV spectrograph including a wedge filter spectrograph. This technique will require a blackbody source of known temperature and a bolometer to characterize the interferometer part of the Fourier Transform spectrometer. This pa?er will describe the alternative slit function measurement technique using a Fourier transform spectrometer.

Park, Hongwoo↗

Hodoscope Measurements of the Spectrum of Cosmic Electrons Between 10 Gev and 100 Gev

In an attempt to reduce divergences among independent measurements of the electron spectrum above 10 GeV, electrons were detected with the aid of a large hodoscope which incorporates 8 trays of Geiger tubes and 10 scintillation counters into a calorimeter containing 33 radiation lengths of lead. This instrument was thoroughly calibrated up to 9 GeV with an electron synchrotron and was flown twice at a depth of 5 g/sq cm for a total of 30 hours at ceiling. Electron showers at 10 GeV are completely contained within the calorimeter where their ionization is sampled twelve times, and where hodoscope trays provide information on the geometrical distribution of shower particles. Electrons appeared in a histogram of number of events vs. a X2 measure of goodness of fit to electron shower curves as a clearly resolved peak standing well above the nuclear background. The initial ionization and the lateral spread of shower particles are consistent with those of calibration electrons. In contrast, the behavior of the nuclear continuum associated with minimum ionizing incident particles is different from that of calibration electrons but similar to that of nuclear events associated with incident helium nuclei. The differential electron spectrum from 10 to 100 GeV was obtained.

Meegan, C. A.↗

Microwave emission and scattering from Earth surface and atmosphere

Nonlinear Electromagnetic (EM) wave interactions with the upper atmosphere were investigated during the period 15 December 1985 to 15 June 1986. Topics discussed include: the simultaneous excitation of ionospheric density irregularities and Earth's magnetic field fluctuations; the electron acceleration by Langmuir wave turbulence; and the occurrence of artificial spread F. The role of thermal effects in generating ionospheric irregularities by Whistler waves, intense Quasi-DC electric fields, atmospheric gravity waves, and electrojets was investigated. A model was developed to explain the discrete spectrum of the resonant ultralow frequency (ULF) waves that are commonly observed in the magnetosphere.

Kong, J. A.↗

Method of Detecting System Function by Measuring Frequency Response

Real time battery impedance spectrum is acquired using one time record, Compensated Synchronous Detection (CSD). This parallel method enables battery diagnostics. The excitation current to a test battery is a sum of equal amplitude sin waves of a few frequencies spread over range of interest. The time profile of this signal has duration that is a few periods of the lowest frequency. The voltage response of the battery, average deleted, is the impedance of the battery in the time domain. Since the excitation frequencies are known, synchronous detection processes the time record and each component, both magnitude and phase, is obtained. For compensation, the components, except the one of interest, are reassembled in the time domain. The resulting signal is subtracted from the original signal and the component of interest is synchronously detected. This process is repeated for each component.

Morrison, John L.↗

Structure-guided design of direct-acting antivirals that exploit the gem-dimethyl effect and potently inhibit 3CL proteases of severe acute respiratory syndrome Coronavirus-2 (SARS-CoV-2) and middle east respiratory syndrome coronavirus (MERS-CoV)

The high morbidity and mortality associated with SARS-CoV-2 infection, the etiological agent of COVID-19, has had a major impact on global public health. Significant progress has been made in the development of an array of vaccines and biologics, however, the emergence of SARS-CoV-2 variants and breakthrough infections are an ongoing major concern. Furthermore, there is an existing paucity of small-molecule host and virus-directed therapeutics and prophylactics that can be used to counter the spread of SARS-CoV-2, and any emerging and re-emerging coronaviruses. Here, we describe herein our efforts to address this urgent need by focusing on the structure-guided design of potent broad-spectrum inhibitors of SARS-CoV-2 3C-like protease (3CL pro or Main protease), an enzyme essential for viral replication. The inhibitors exploit the directional effects associated with the presence of a gem-dimethyl group that allow the inhibitors to optimally interact with the S4 subsite of the enzyme. Several compounds were found to potently inhibit SARS-CoV-2 and MERS-CoV 3CL proteases in biochemical and cell-based assays. Specifically, the EC50 values of aldehyde 1c and its corresponding bisulfite adduct 1d against SARS-CoV-2 were found to be 12 and 10 nM, respectively, and their CC50 values were >50 μM. Furthermore, deuteration of these compounds yielded compounds 2c/2d with EC50 values 11 and 12 nM, respectively. Replacement of the aldehyde warhead with a nitrile (CN) or an α-ketoamide warhead or its corresponding bisulfite adduct yielded compounds 1g, 1e and 1f with EC50 values 60, 50 and 70 nM, respectively. High-resolution cocrystal structures have identified the structural determinants associated with the binding of the inhibitors to the active site of the enzyme and, furthermore, have illuminated the mechanism of action of the inhibitors. Overall, the high Safety Index (SI) (SI=CC50/EC50) displayed by these compounds suggests that they are well-suited to conducting further preclinical studies.

3-Chymotrypsin-like protease (3CLpro)↗

Low energy (10eV to 10 keV) equatorial particle fluxes and soft particle fluxes near the equator

Several spectra are shown that represent one rotation of ISIS-1. Spectra 1, 2, 3, represent particles moving down the field line into northern ionosphere and spectra 4, 5, 6 represent particles moving up field lines towards the magnetic equator. The former are direct fluxes and the latter are albedo fluxes. The spectra observed are remarkably similar to these observed in the auroral zone. The direct fluxes exhibit a relative maximum in the few keV range and the albedo a power low spectrum with increased fluxes at low energies. Examination of concurrent topside sounder data on ISIS-1 revealed a positive correlation between a region of turbulent ionosphere and particle fluxes. This ionospheric condition is referred to as equatorial spread F and has been studied extensively with bottomside ionospheric sounders and backscatter radars. The perigee of ISIS crossed the magnetic equator at four local times (0400, 1000, 1600, 2100) during the lifetime of the particle spectrometer. No fluxes were observed at 0400 and 1000 local time. At 1600 a few instances of particles were observed. At 2100 essentially all passes included detectable equatorial fluxes. This is in agreement with the frequency of occurence of equatorial spread F.

Winningham, J. D.↗

Spontaneous radiation from relativistic electrons in a tapered undulator

The spectrum, angular distribution, polarization, and coherence properties of the radiation emitted by relativistic electrons undulating through a quasiperiodic tapered magnetic field are studied. Tapering the wavelength and/or field strength along the undulator's axis has the effect of spreading the spectral line to higher frequencies; interference over this broader spectral range results in a more complex line shape. The angular dependence, on the other hand, is not affected by the amount of taper. The polarization of the radiation in the forward direction is determined by the transverse polarization of the undulator, but the polarization changes off axis. The radiation patterns predicted here are distinct from those of untapered undulators and their detection is now feasible. They will provide useful diagnostics of electron trajectories and threshold behavior in free-electron-laser oscillators using tapered undulators.

Bosco, P.↗