Results for “model diagnostics” — Page 80

DOE OSTI2018

Translational Systems Pharmacology‐Based Predictive Assessment of Drug‐Induced Cardiomyopathy

Drug‐induced cardiomyopathy contributes to drug attrition. We compared two pipelines of predictive modeling: (1) applying elastic net (EN) to differentially expressed genes (DEGs) of drugs; (2) applying integer linear programming (ILP) to construct each drug's signaling pathway starting from its targets to downstream proteins, to transcription factors, and to its DEGs in human cardiomyocytes, and then subjecting the genes/proteins in the drugs' signaling networks to EN regression. We classified 31 drugs with availability of DEGs into 13 toxic and 18 nontoxic drugs based on a clinical cardiomyopathy incidence cutoff of 0.1%. The ILP‐augmented modeling increased prediction accuracy from 79% to 88% (sensitivity: 88%; specificity: 89%) under leave‐one‐out cross validation. The ILP‐constructed signaling networks of drugs were better predictors than DEGs. Per literature, the microRNAs that reportedly regulate expression of our six top predictors are of diagnostic value for natural heart failure or doxorubicin‐induced cardiomyopathy. This translational predictive modeling might uncover potential biomarkers.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2004

Validation of Mars-GRAM and Planned New Features

For altitudes below 80 km, Mars Global Reference Atmospheric Model (Mars-GRAM 2001) is based on output climatology from NASA Ames Mars General Circulation Model (MGCM). At COSPAR 2002, results were presented of validation tests of Mars-GRAM versus data from Mars Global Surveyor Thermal Emission Spectrometer (TES) and Radio Science (RS) experiment. Further validation tests are presented comparing Mars- GRAM densities with those from the European Mars Climate Database (MCD), and comparing densities from both Mars-GRAM and MCD against TES observations. Throughout most of the height and latitude range of TES data (040 km and 70s to 70N), good agreement is found between atmospheric densities from Mars-GRAM and MCD. However, at the season and latitude zone for Mars Phoenix arrival and landing (Ls = 65 to 80 degrees and latitude 65 to 75N), Mars-GRAM densities are about 30 to 45 percent higher than MCD densities near 40 km altitude. Further evaluation is warranted concerning potential impact of these model differences on planning for Phoenix entry and descent. Three planned features for Mars-GRAM update are also discussed: (1) new MGCM and Thermospheric General Circulation Model data sets to be used as a revised basis for Mars-GRAM mean atmosphere, (2) a new feature to represent planetary-scale traveling waves for upper altitude density variations (such as found during Mars Odyssey aerobraking), and (3) a new model for effects of high resolution topographic slope on winds near the surface (0 to 4.5 km above MOLA topography level). Mars-GRAM slope winds will be computed from a diagnostic (algebraic) relationship based on Ye, Segal, and Pielke (1990). This approach differs from mesoscale models (such as MRAMS and Mars MM5), which use prognostic, full-physics solutions of the time- and space-dependent differential equations of motion. As such, slope winds in Mars-GRAM will be consistent with its "engineering-level" approach, and will be extremely fast and easy to evaluate, compared with mesoscale model solutions. Mars-GRAM slope winds are not being suggested as a replacement for sophisticated, full-physics Mars mesoscale models, but may have value, particularly for preliminary screening of large numbers of candidate landing sites for future Mars missions, such as Phoenix and Mars Science Laboratory. Test output is presented from Mars-GRAM slope winds in the area of Gusev Crater and Valles Marineris.

Justus, C. G.↗

NASA NTRS2019

Modeling Mg II During Solar Flares. I. Partial Frequency Redistribution, Opacity, and Coronal Irradiation

The Interface Region Imaging Spectrograph has routinely observed the ﬂaring Mg II near-ultraviolet (NUV) spectrum, offering excellent diagnostic potential and a window into the location of energy deposition. A number of studies have forward-modeled both the general properties of these lines and speciﬁc ﬂare observations. Generally these have forward-modeled radiation via post-processing of snapshots from hydrodynamic ﬂare simulations through radiation transfer codes. There has, however, not been a study of how the physics included in these radiation transport codes affects the solution. A baseline setup for forward-modeling Mg II in ﬂares is presented and contrasted with approaches that add or remove complexity. It is shown for Mg II that (1) partial frequency distribution (PRD) is still required during ﬂare simulations despite the increased densities; (2) using full angle-dependent PRD affects the solution but takes signiﬁcantly longer to process a snapshot; (3) including Mg I in non-LTE (NLTE) results in negligible differences to the Mg II lines but does affect the NUV quasi-continuum; (4) only hydrogen and Mg II need to be included in NLTE; (5) ideally the nonequilibrium hydrogen populations, with nonthermal collisional rates, should be used rather than the statistical equilibrium populations; (6) an atom consisting of only the ground state, h and k upper levels, and continuum level is insufﬁcient to model the resonance lines; and (7) irradiation from a hot, dense ﬂaring transition region can affect the formation of Mg II. We discuss modiﬁcations to the RH code allowing straightforward inclusion of the transition region and coronal irradiation in ﬂares.

Kerr, Graham S.↗

DOE OSTI2016

The Radiative Forcing Model Intercomparison Project (RFMIP): Experimental protocol for CMIP6

The phrasing of the first of three questions motivating CMIP6 – “How does the Earth system respond to forcing?” – suggests that forcing is always well-known, yet the radiative forcing to which this question refers has historically been uncertain in coordinated experiments even as understanding of how best to infer radiative forcing has evolved. The Radiative Forcing Model Intercomparison Project (RFMIP) endorsed by CMIP6 seeks to provide a foundation for answering the question through three related activities: (i) accurate characterization of the effective radiative forcing relative to a near-preindustrial baseline and careful diagnosis of the components of this forcing; (ii) assessment of the absolute accuracy of clear-sky radiative transfer parameterizations against reference models on the global scales relevant for climate modeling; and (iii) identification of robust model responses to tightly specified aerosol radiative forcing from 1850 to present. Complete characterization of effective radiative forcing can be accomplished with 180 years (Tier 1) of atmosphere-only simulation using a sea-surface temperature and sea ice concentration climatology derived from the host model's preindustrial control simulation. Assessment of parameterization error requires trivial amounts of computation but the development of small amounts of infrastructure: new, spectrally detailed diagnostic output requested as two snapshots at present-day and preindustrial conditions, and results from the model's radiation code applied to specified atmospheric conditions. In conclusion, the search for robust responses to aerosol changes relies on the CMIP6 specification of anthropogenic aerosol properties; models using this specification can contribute to RFMIP with no additional simulation, while those using a full aerosol model are requested to perform at least one and up to four 165-year coupled ocean–atmosphere simulations at Tier 1.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2023

Impact of Design Factors for ESA CCI Satellite Soil Moisture Data Assimilation over Europe

In this study, soil moisture retrievals of the combined active–passive ESA Climate Change Initiative (CCI) soil moisture product are assimilated into the Noah-MP land surface model over Europe using a one-dimensional ensemble Kalman filter and an 18-yr study period. The performance of the data assimilation (DA) system is evaluated by comparing it with a model-only experiment (at in situ sites) and by assessing statistics of innovations and increments as DA diagnostics (over the entire domain). For both assessments, we explore the impact of three design choices, resulting in the following insights. 1) The magnitude of the assumed observation errors strongly affects the skill improvements evaluated against in situ stations and internal diagnostics. 2) Choosing between climatological or monthly cumulative distribution function matching as the observation bias correction method only has a marginal effect on the in situ skill of the DA system. However, the internal diagnostics suggest a more robust system parameterization if the observations are rescaled monthly. 3) The choice of atmospheric reanalysis dataset to force the land surface model affects the model-only skill and the DA skill improvements. The model-only skill is higher with input from the MERRA-2 than with input from the ERA5 reanalysis, resulting in larger DA skill improvements for the latter. Additionally, we show that the added value of the DA strongly depends on the quality of the satellite retrievals and land cover, with the most substantial soil moisture skill improvements occurring over croplands and skill degradation occurring over densely forested areas.

Soil moisture↗

DOE OSTI2021

Filamentation and focusing of electron beams due to interactions with plasma waves

Results of numerical modeling of the interaction of an electron beam propagating across relativistic plasma waves indicate that electron beam filamentation and focusing may occur under certain conditions. The model is based on solving the relativistic equation of motion in three dimensions for the individual electrons in a tenuous Gaussian beam, as they pass through a relativistic plasma wave. Several electron beam and plasma wave parameters were varied, and the results are summarized. One of the results is that the spacing of the electron beam filaments correlates with the wavelength of the plasma wave. The electron beam filaments appear as vertical slabs after the beam exits the plasma waves. The electron beam also compresses to a focus after it exits the plasma, and the focal distance depends on several parameters including the electron beam energy and phase velocity of the relativistic plasma wave. It is suggested that these focusing and filamentation phenomena may be the basis for diagnostics schemes for laser plasma interactions. The parameters used in the model were electron beam energies in the 5–50 keV range and plasma wave properties typical for the beat-wave produced by CO2 lasers, which correspond to the facilities available in our laboratory. The limitations of these results to lower energy density beam and plasma regimes and to higher energy density regimes will be discussed.

47 OTHER INSTRUMENTATION↗

DOE OSTI2014

Realistic simulation of reduced-dose CT with noise modeling and sinogram synthesis using DICOM CT images

Purpose: Reducing the patient dose while maintaining the diagnostic image quality during CT exams is the subject of a growing number of studies, in which simulations of reduced-dose CT with patient data have been used as an effective technique when exploring the potential of various dose reduction techniques. Difficulties in accessing raw sinogram data, however, have restricted the use of this technique to a limited number of institutions. Here, we present a novel reduced-dose CT simulation technique which provides realistic low-dose images without the requirement of raw sinogram data. Methods: Two key characteristics of CT systems, the noise equivalent quanta (NEQ) and the algorithmic modulation transfer function (MTF), were measured for various combinations of object attenuation and tube currents by analyzing the noise power spectrum (NPS) of CT images obtained with a set of phantoms. Those measurements were used to develop a comprehensive CT noise model covering the reduced x-ray photon flux, object attenuation, system noise, and bow-tie filter, which was then employed to generate a simulated noise sinogram for the reduced-dose condition with the use of a synthetic sinogram generated from a reference CT image. The simulated noise sinogram was filtered with the algorithmic MTF and back-projected to create a noise CT image, which was then added to the reference CT image, finally providing a simulated reduced-dose CT image. The simulation performance was evaluated in terms of the degree of NPS similarity, the noise magnitude, the bow-tie filter effect, and the streak noise pattern at photon starvation sites with the set of phantom images. Results: The simulation results showed good agreement with actual low-dose CT images in terms of their visual appearance and in a quantitative evaluation test. The magnitude and shape of the NPS curves of the simulated low-dose images agreed well with those of real low-dose images, showing discrepancies of less than +/−3.2% in terms of the noise power at the peak height and +/−1.2% in terms of the spatial frequency at the peak height. The magnitudes of the noise measured for 12 different combinations the phantom size, tube current, and reconstruction kernel for the simulated and real low-dose images were very similar, with differences of 0.1 to 4.7%. Thep value for a statistical testing of the difference in the noise magnitude ranged from 0.99 to 0.11, showing that there was no difference statistically between the noise magnitudes of the real and simulated low-dose images using our method. The strength and pattern of the streak noise in an anthropomorphic phantom was also consistent with expectations. Conclusions: A novel reduced-dose CT simulation technique was developed which uses only CT images while not requiring raw sinogram data. Our method can provide realistic simulation results under reduced-dose conditions both in terms of the noise magnitude and the textual appearance. This technique has the potential to promote clinical research for patient dose reductions.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2015

Tungsten Data for Current and Future Uses in Fusion and Plasma Science

We give a brief overview of our recent experimental and theoretical work involving highly charged tungsten ions in high-temperature magnetically confined plasmas. Our work includes X-ray and extreme ultraviolet spectroscopy, state-of-the-art structure calculations, the generation of dielectronic recombination rate coefficients, collisional-radiative spectral modeling and assessments of the atomic data need for X-ray diagnostics monitoring of the parameters of the core plasma of future tokamaks, such as ITER. We give examples of our recent results in these areas.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2017

Understanding the Implications of a LINAC’s Microstructure on Devices and Photocurrent Models

Here, the effect of a linear accelerator’s (LINAC’s) microstructure (i.e., train of narrow pulses) on devices and the associated transient photocurrent models are investigated. The data indicate that the photocurrent response of Si-based RF bipolar junction transistors and RF p-i-n diodes is considerably higher when taking into account the microstructure effects. Similarly, the response of diamond, SiO 2 , and GaAs photoconductive detectors (standard radiation diagnostics) is higher when taking into account the microstructure. This has obvious hardness assurance implications when assessing the transient response of devices because the measured photocurrent and dose rate levels could be underestimated if microstructure effects are not captured. Indeed, the rate the energy is deposited in a material during the microstructure peaks is much higher than the filtered rate which is traditionally measured. In addition, photocurrent models developed with filtered LINAC data may be inherently inaccurate if a device is able to respond to the microstructure.

43 PARTICLE ACCELERATORS↗

DOE OSTI2020

View factor estimation of hot spot velocities in inertial confinement fusion implosions at the National Ignition Facility

nertial confinement fusion (ICF) experiments at the National Ignition Facility (NIF) suffer from asymmetries in thex-ray drive that degrade capsule performance compared to expectations for a symmetric one-dimensional implosion.Mode 1, or pole-to-pole, drive asymmetry can reduce confinement and implosion efficiency, driving a bulk motion ofthe hot spot that is detectable with neutron diagnostics. Understanding and removing sources of mode 1 asymmetry inICF implosions is important for improving performance, and the three-dimensional nature of the problem makes high-resolution radiation-hydrodynamic modeling extremely computationally expensive. This work describes a reducedorder view factor model that calculates the drive asymmetry induced by beam-to-beam variations in laser delivery andhohlraum diagnostic windows along the equator. Capsule response is estimated by coupling to a Green’s function thatrelates final hot spot velocity to the applied time-varying mode 1 asymmetry. The model makes several predictionsabout the impact of mode 1 drivers such as laser delivery and target misalignment, and achieves good agreementin both magnitude and vector direction for several shots in three families of high-performance platforms. However,notable discrepancies suggest other potential sources of mode 1 asymmetry not captured by the model are also at play

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2012

Improved long-term electrical stability of pulsed high-power diodes using dense carbon fiber velvet cathodes

The influence of fibrous velvet cathodes on the electrical stability of a planar high-power diode powered by a {approx}230 kV, {approx}110 ns pulse has been investigated. The current density was on the order of {approx}123 A/cm{sup 2}. A combination of time-resolved electrical and optical diagnostics has been employed to study the basic phenomenology of the temporal and spatial evolution of the diode plasmas. Additionally, an impedance model was used to extract information about this plasma from voltage and current profiles. The results from the two diagnostics were compared. By comparison with commercial polymer velvet cathode, the dense carbon fiber velvet cathode showed superior long-term electrical stability as judged by the change in cathode turn-on field, ignition delays, diode impedance, and surface plasma characteristics during the voltage flattop, a promising result for applications where reliable operation at high power is required. Finally, it was shown that the interaction of the electron beam with the stainless steel anode did not lead to the formation of anode plasma. These results may be of interest to the high power microwave systems with cold cathodes.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2013

X-RAY OUTFLOWS AND SUPER-EDDINGTON ACCRETION IN THE ULTRALUMINOUS X-RAY SOURCE HOLMBERG IX X-1

Studies of X-ray continuum emission and flux variability have not conclusively revealed the nature of ultraluminous X-ray sources (ULXs) at the high-luminosity end of the distribution (those with L{sub X} {>=} 10{sup 40} erg s{sup -1}). These are of particular interest because the luminosity requires either super-Eddington accretion onto a black hole of mass {approx}10 M{sub Sun} or more standard accretion onto an intermediate-mass black hole. Super-Eddington accretion models predict strong outflowing winds, making atomic absorption lines a key diagnostic of the nature of extreme ULXs. To search for such features, we have undertaken a long, 500 ks observing campaign on Holmberg IX X-1 with Suzaku. This is the most sensitive data set in the iron K bandpass for a bright, isolated ULX to date, yet we find no statistically significant atomic features in either emission or absorption; any undetected narrow features must have equivalent widths less than 15-20 eV at 99% confidence. These limits are far below the {approx}>150 eV lines expected if observed trends between mass inflow and outflow rates extend into the super-Eddington regime and in fact rule out the line strengths observed from disk winds in a variety of sub-Eddington black holes. We therefore cannot be viewing the central regions of Holmberg IX X-1 through any substantial column of material, ruling out models of spherical super-Eddington accretion. If Holmberg IX X-1 is a super-Eddington source, any associated outflow must have an anisotropic geometry. Finally, the lack of iron emission suggests that the stellar companion cannot be launching a strong wind and that Holmberg IX X-1 must primarily accrete via Roche-lobe overflow.

79 ASTRONOMY AND ASTROPHYSICS↗

NASA NTRS2018

A Laser-Induced Fluorescence Diagnostic for HERMeS and High-Power Electric Propulsion

NASA is continuing the development of a 12.5-kW Hall thruster system, which is baselined in a phased exploration concept to expand human presence to cis-lunar space and eventually to Mars. The development team is transitioning knowledge gained from the testing of the government-built Technology Development Unit (TDU) to the contractor-built Engineering Development Unit (EDU). A new laser-induced fluorescence diagnostic that is compatible with the testing of engineering hardware was developed to obtain data for thruster model validation in the lowest background pressure achievable. Prior to performing the test on the EDU, the team performed a functional checkout test of this new diagnostic using the TDU. In addition to providing a checkout of the diagnostic, this test provided data that can be correlated to electron mobility for comparison to the EDU at a later date. A number of technical challenges related to large test facilities and interfacing with engineering hardware were overcome while implementing the new laser diagnostic system. The initial data set was in good agreement with prior optical and non-optical diagnostics data collected on the TDU thrusters. This data set also revealed the spatial origin of high angle ions that have been of concern for spacecraft integration.

Huang, Wensheng↗

NASA NTRS2018

Ion Velocity in the Discharge Channel and Near-Field of the HERMeS Hall Thruster

NASA is continuing the development of a 12.5-kW Hall thruster system, which is baselined in a phased exploration concept to expand human presence to cis-lunar space and eventually to Mars. The development team is transitioning knowledge gained from the testing of the government-built Technology Development Unit (TDU) to the contractor-built Engineering Development Unit (EDU). A new laser-induced fluorescence diagnostic that is compatible with the testing of engineering hardware was developed to obtain data for thruster model validation in the lowest background pressure achievable. Prior to performing the test on the EDU, the team performed a functional checkout test of this new diagnostic using the TDU. In addition to providing a checkout of the diagnostic, this test provided data that can be correlated to electron mobility for comparison to the EDU at a later date. A number of technical challenges related to large test facilities and interfacing with engineering hardware were overcome while implementing the new laser diagnostic system. The initial data set was in good agreement with prior optical and non-optical diagnostics data collected on the TDU thrusters. This data set also revealed the spatial origin of high angle ions that have been of concern for spacecraft integration.

Huang, Wensheng↗

NASA NTRS2018

A Laser-Induced Fluorescence Diagnostic for HERMeS and High-Power Electric Propulsion

NASA is continuing the development of a 12.5-kW Hall thruster system, which is baselined in a phased exploration concept to expand human presence to cis-lunar space and eventually to Mars. The development team is transitioning knowledge gained from the testing of the government-built Technology Development Unit (TDU) to the contractor-built Engineering Development Unit (EDU). A new laser-induced fluorescence diagnostic that is compatible with the testing of engineering hardware was developed to obtain data for thruster model validation in the lowest background pressure achievable. Prior to performing the test on the EDU, the team performed a functional checkout test of this new diagnostic using the TDU. In addition to providing a checkout of the diagnostic, this test provided data that can be correlated to electron mobility for comparison to the EDU at a later date. A number of technical challenges related to large test facilities and interfacing with engineering hardware were overcome while implementing the new laser diagnostic system. The initial data set was in good agreement with prior optical and non-optical diagnostics data collected on the TDU thrusters. This data set also revealed the spatial origin of high angle ions that have been of concern for spacecraft integration.

Huang, Wensheng↗

NASA NTRS2018

Ion Velocity in the Discharge Channel and Near-Field of the HERMeS Hall Thruster

NASA is continuing the development of a 12.5-kW Hall thruster system, which is baselined in a phased exploration concept to expand human presence to cis-lunar space and eventually to Mars. The development team is transitioning knowledge gained from the testing of the government-built Technology Development Unit (TDU) to the contractor-built Engineering Development Unit (EDU). A new laser-induced fluorescence diagnostic that is compatible with the testing of engineering hardware was developed to obtain data for thruster model validation in the lowest background pressure achievable. Prior to performing the test on the EDU, the team performed a functional checkout test of this new diagnostic using the TDU. In addition to providing a checkout of the diagnostic, this test provided data that can be correlated to electron mobility for comparison to the EDU at a later date. A number of technical challenges related to large test facilities and interfacing with engineering hardware were overcome while implementing the new laser diagnostic system. The initial data set was in good agreement with prior optical and non-optical diagnostics data collected on the TDU thrusters. This data set also revealed the spatial origin of high angle ions that have been of concern for spacecraft integration.

Huang, Wensheng↗

NASA NTRS2018

Ion Velocity in the Discharge Channel and Near-Field of the HERMeS Hall Thruster

NASA is continuing the development of a 12.5-kW Hall thruster system, which is baselined in a phased exploration concept to expand human presence to cis-lunar space and eventually to Mars. The development team is transitioning knowledge gained from the testing of the government-built Technology Development Unit (TDU) to the contractor-built Engineering Development Unit (EDU). A new laser-induced fluorescence diagnostic that is compatible with the testing of engineering hardware was developed to obtain data for thruster model validation in the lowest background pressure achievable. Prior to performing the test on the EDU, the team performed a functional checkout test of this new diagnostic using the TDU. In addition to providing a checkout of the diagnostic, this test provided data that can be correlated to electron mobility for comparison to the EDU at a later date. A number of technical challenges related to large test facilities and interfacing with engineering hardware were overcome while implementing the new laser diagnostic system. The initial data set was in good agreement with prior optical and non-optical diagnostics data collected on the TDU thrusters. This data set also revealed the spatial origin of high angle ions that have been of concern for spacecraft integration.

Huang, Wensheng↗

DOE OSTI2020

Experiments and simulations of isochorically heated warm dense carbon foam at the Texas Petawatt Laser

An experimental and simulation study of warm dense carbon foams at ambient density (n e ~10 21 cm –3 ) is presented. This study of isochorically heated foams is motivated by their potential application in carbon-atmosphere white-dwarf envelopes, where there are modeling uncertainties due to the equation of state. The foams are heated on an approximately picosecond time scale with a laser-accelerated proton beam. The cooling and expansion of the heated foams can be modeled with appropriately initialized radiation-hydrodynamics codes; xRAGE code is used in this work. The primary experimental diagnostic is the streaked optical pyrometer, which images a narrow band of radiation from the rear surface of the heated material. Presented are xRAGE modeling results for both solid aluminum targets and carbonized resorcinol-formaldehyde foam targets, showing that the foam appears to cool slowly on the pyrometer because of partial transparency. So that simulations of cooling foam are processed properly, it is necessary to account for finite optical depth in the photosphere calculation, and the methods for performing that calculation are presented in depth.

36 MATERIALS SCIENCE↗