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At least 109 records · Page 6

Studying Functions of All Yeast Genes Simultaneously

A method of studying the functions of all the genes of a given species of microorganism simultaneously has been developed in experiments on Saccharomyces cerevisiae (commonly known as baker's or brewer's yeast). It is already known that many yeast genes perform functions similar to those of corresponding human genes; therefore, by facilitating understanding of yeast genes, the method may ultimately also contribute to the knowledge needed to treat some diseases in humans. Because of the complexity of the method and the highly specialized nature of the underlying knowledge, it is possible to give only a brief and sketchy summary here. The method involves the use of unique synthetic deoxyribonucleic acid (DNA) sequences that are denoted as DNA bar codes because of their utility as molecular labels. The method also involves the disruption of gene functions through deletion of genes. Saccharomyces cerevisiae is a particularly powerful experimental system in that multiple deletion strains easily can be pooled for parallel growth assays. Individual deletion strains recently have been created for 5,918 open reading frames, representing nearly all of the estimated 6,000 genetic loci of Saccharomyces cerevisiae. Tagging of each deletion strain with one or two unique 20-nucleotide sequences enables identification of genes affected by specific growth conditions, without prior knowledge of gene functions. Hybridization of bar-code DNA to oligonucleotide arrays can be used to measure the growth rate of each strain over several cell-division generations. The growth rate thus measured serves as an index of the fitness of the strain.

Stolc, Viktor↗

Vertical Distribution of Aersols and Water Vapor Using CRISM Limb Observations

Near-infrared spectra taken in a limb-viewing geometry by the Compact Reconnaissance Imaging Spectrometer for Mars (CRISM) on-board the Mars Reconnaissance Orbiter (MRO) provide a useful tool for probing atmospheric structure. Specifically, the observed radiance as a function of wavelength and height above the limb allows the vertical distribution of both dust and ice aerosols to be retrieved. These data serve as an important supplement to the aerosol profiling provided by the MRO/MCS instrument allowing independent validation and giving additional information on particle physical and scattering properties through multi-wavelength studies. A total of at least ten CRISM limb observations have been taken so far covering a full Martian year. Each set of limb observations nominally contains about four dozen scans across the limb giving pole-to-pole coverage for two orbits at roughly 100 and 290 W longitude over the Tharsis and Syrtis/Hellas regions, respectively. At each longitude, limb scans are spaced roughly 10 degrees apart in latitude, with a vertical spatial resolution on the limb of roughly 800 m. Radiative transfer modeling is used to model the observations. We compute synthetic CRISM limb spectra using a discrete-ordinates radiative transfer code that accounts for multiple scattering from aerosols and accounts for spherical geometry of the limb observations by integrating the source functions along curved paths in that coordinate system. Retrieved are 14-point vertical profiles for dust and water ice aerosols with resolution of 0.4 scale heights between one and six scale heights above the surface. After the aerosol retrieval is completed, the abundances of C02 (or surface pressure) and H20 gas are retrieved by matching the depth of absorption bands at 2000 nm for carbon dioxide and at 2600 run for water vapor. In addition to the column abundance of water vapor, limited information on its vertical structure can also be retrieved depending on the signal available from aerosol scattering.

Smith, Michael D.↗

An ultra-fast method for generating synthetic down-scattered neutron data for inertial confinement fusion implosions

In inertial confinement fusion experiments at the National Ignition Facility, asymmetries are probed by a variety of neutron diagnostics, including neutron imaging systems, real-time neutron activation diagnostics (RTNADs), and neutron spectrometers. It is often useful to generate synthetic data based on these diagnostics to validate and tune models. However, current methods of doing so using Monte Carlo particle tracing are time-consuming. In this paper, an ultra-fast method is presented for generating synthetic neutron images, RTNAD data, and spectrometry data using line integrals and 3D convolutions. While it does not contain as much physics as particle tracing codes, it is thousands of times faster and produces nearly identical data. This enables analysis techniques that depend on generating large amounts of synthetic data, which will prove very useful for the study of asymmetries going forward.

Deuterium↗

A novel approach to increase accuracy in remotely sensed evapotranspiration through basin water balance and flux tower constraints

Remote sensing-derived evapotranspiration (RSET) products capture the spatiotemporal variations of evapotranspiration (ET) from field to basin scales with unprecedented details. However, their accuracy varies across RSET estimation methods and diverse hydroclimate regions. While ET modeling efforts to account for biophysical processes and controlling parameters have made good progress in recent years, a parallel approach of integrating in-situ ET with RSET could reduce biases in RSET products. Basin water balance ET (WBET) and flux tower ET are widely applied to evaluate RSET accuracy, yet such ET measurements are rarely used for RSET bias corrections, especially for large area applications. To address this issue, we propose a novel approach: the water balance equivalence (WABE) method, which generates spatially continuous WBET for correcting biases in RSET products. The WABE method computes synthetic WBET by integrating observed WBET and flux tower-derived FLUXCOM ET, which fills the spatial gaps of observed WBET and generates a spatially continuous WBET dataset. Synthetic WBET (2002–2015 annual average) of eight-digit hydrologic unit code (HUC8) basins across the conterminous United States (CONUS), constituting 44 % (887 out of 2035 basins) of CONUS basins, was determined within 2.0 % (RMSE = 12 %) of observed WBET at CONUS and between 1–12 % (RMSE = 3–33 %) across 18 regions in CONUS. With WABE-based bias corrections, the overall annual bias of RSET decreased from 10 % (RMSE = 34 %) to 6 % (RMSE = 26 %) across 37 flux tower sites. The WABE method offers a new approach for RSET accuracy improvement and shows great promise for large area implementations with a potential to yield substantial benefits for building accurate basin water budgets and water management decisions.

Khand, Kul↗

A pseudo-kinetic model to simulate phase changes in gas hydrate bearing sediments

Herein, modeling of the phase transitions anticipated in gas hydrate bearing sediments (GHBS) is critical for a proper understanding of time-dependent changes in states and volumes (e.g. the production of methane from this type of soils). We propose a new pseudo-kinetic approach to simulate the typical phase changes anticipated in GHBS, using published experimental results involving gas hydrate dissociation that are the basis of a widely used kinetic model. The proposed pseudo-kinetic model is formulated in the pressure-temperature (P-T) plane and assumes a rate of gas hydrate dissociation (or formation) proportional to the distance between the current state and the phase boundary. The model consists of only one parameter and is simple to implement in numerical simulators. A similar concept is used to model ice formation/thawing phenomena, but based on the ice/liquid-water phase boundary. We implemented the pseudo-kinetic model in a fully coupled thermo-hydro-chemo-mechanical (THCM) finite element code and validated it against experimental results performed on the dissociation of synthetic gas hydrate. We also evaluated the pseudo-kinetic model using synthetic cases covering several scenarios associated with gas hydrate formation/dissociation and ice formation/thawing. The model successfully reproduced the gas production test from a natural GHBS core from Korea (scaled gas venting experiment over 14 h), and also the formation of gas hydrate and ice in permafrost in Alaska (over 2 × 10 6 years). -The analyses show the versatility of the proposed pseudo-kinetic approach by applying it to model the different types of phase transitions typically encounter in GHBS. The simple formulation, easy implementation in numerical simulator, and reduced number of parameters (only one per phase change) make this model an attractive option for simulating phase transformations in problems involving GHBS.

58 GEOSCIENCES↗

A case study of using x-ray Thomson scattering to diagnose the in-flight plasma conditions of DT cryogenic implosions

The design of inertial confinement fusion ignition targets requires radiation-hydrodynamics simulations with accurate models of the fundamental material properties (i.e., equation of state, opacity, and conductivity). Validation of these models is required via experimentation. A feasibility study of using spatially integrated, spectrally resolved, x-ray Thomson scattering measurements to diagnose the temperature, density, and ionization of the compressed DT shell of a cryogenic DT implosion at two-thirds convergence was conducted. Synthetic scattering spectra were generated using 1D implosion simulations from the LILAC code that were post processed with the x-ray scattering model, which is incorporated within SPECT3D. Analysis of two extreme adiabat capsule conditions showed that the plasma conditions for both compressed DT shells could be resolved.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Numerical studies on saturated kink and sawtooth induced fast ion transport in JET ITER-like plasmas

Here, this presentation examines the energetic particle transport induced by saturated kink modes and sawtooth crashes in JET deuterium plasmas. It is known that kink mode-resonant transport and phase-space redistribution from sawtooth crashes can drive strong fast ion transport with dependencies on particle pitch and energy. Measurements with JET's Faraday cup fast ion loss detector array have shown that the internal kink growth phase preceding sawtooth crashes produces substantial fast ion losses. This report will numerically investigate the dominant energetic particle transport mechanism with a detailed examination of the fast ion phase-space dependencies, resonances, orbit topology changes, induced losses, and redistribution associated with the long-lived, resonant, kink mode and non-resonant sawtooth crash. The ORBIT-kick model forms the basis of the transport studies with realistic fast ion distributions produced from TRANSP. A recently created reduced model for sawtooth induced transport is used while the saturated kink modes are modeled with ideal MHD codes. The simulations were further validated against experiment with a newly developed synthetic Faraday cup fast ion loss detector in addition to scintillator probe and neutron measurements.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

A theoretical and observational study of the Red Giant Branch phase transition in Magellanic Cloud clusters - A progress report

Preliminary results are reported for an investigation comparing theoretical models of the sudden appearance of an extended RGB (and its effects on the spectral energy distributions of stellar populations) with data from ESO CCD observations of clusters in the LMC and SMC. Isochrones for the entire RGB are being constructed on the basis of 100 new evolutionary sequences (calculated using the evolution code of Sweigart and Gross, 1976 and 1978) to permit determination of synthetic colors and spectral energy distributions. The observations so far indicate a main sequence about 0.1 mag redder than that predicted by the present models or by the isochrones of VandenBerg and Bell (1985), and fail to show a B-V color difference at the RGB phase transition.

Buonanno, R.↗

The two-way time synchronization system via a satellite voice channel

A newly developed two-way time synchronization system is described in this paper. The system uses one voice channel at a SCPC satellite digital communication earth station, whose bandwidth is only 45 kHz, thus saving satellite resources greatly. The system is composed of one master station and one or several, up to sixty-two, secondary stations. The master and secondary stations are equipped with the same equipment, including a set of timing equipment, a synthetic data terminal for time synchronizing, and a interface unit between the data terminal and the satellite earth station. The synthetic data terminal for time synchronization also has an IRIG-B code generator and a translator. The data terminal of master station is the key part of whole system. The system synchronization process is full automatic, which is controlled by the master station. Employing an autoscanning technique and conversational mode, the system accomplishes the following tasks: linking up liaison with each secondary station in turn, establishing a coarse time synchronization, calibrating date (years, months, days) and time of day (hours, minutes, seconds), precisely measuring the time difference between local station and the opposite station, exchanging measurement data, statistically processing the data, rejecting error terms, printing the data, calculating the clock difference and correcting the phase, thus realizing real-time synchronization from one point to multiple points. We also designed an adaptive phase circuit to eliminate the phase ambiguity of the PSK demodulator. The experiments have shown that the time synchronization accuracy is better than 2 mu S. The system has been put into regular operation.

Heng-Qiu, Zheng↗

Results from a synthetic model of the ITER XRCS-Core diagnostic based on high-fidelity x-ray ray tracing

A high-fidelity synthetic diagnostic has been developed for the ITER core x-ray crystal spectrometer diagnostic based on x-ray ray tracing. This synthetic diagnostic has been used to model expected performance of the diagnostic, to aid in diagnostic design, and to develop engineering tolerances. The synthetic model is based on x-ray ray tracing using the recently developed xicsrt ray tracing code and includes a fully three-dimensional representation of the diagnostic based on the computer aided design. The modeled components are: plasma geometry and emission profiles, highly oriented pyrolytic graphite pre-reflectors, spherically bent crystals, and pixelated x-ray detectors. Plasma emission profiles have been calculated for Xe 44+ , Xe 47+ , and Xe 51+ , based on an ITER operational scenario available through the Integrated Modelling & Analysis Suite database, and modeled within the ray tracing code as a volumetric x-ray source; the shape of the plasma source is determined by equilibrium geometry and an appropriate wavelength distribution to match the expected ion temperature profile. All individual components of the x-ray optical system have been modeled with high-fidelity producing a synthetic detector image that is expected to closely match what will be seen in the final as-built system. Particular care is taken to maintain preservation of photon statistics throughout the ray tracing allowing for quantitative estimates of diagnostic performance.

47 OTHER INSTRUMENTATION↗

Synthetic Data for Testing TRMM Radar Algorithms

Test data are required to test algorithms for the TRMM Precipitation Radar. These data are needed to test the design of the computer codes under development for the operational phase of the mission, and also to test and evaluate alternative or improved precipitation retrieval algorithms. Over a number of years we have developed and used a 3-dimensional radar model for simulating spaceborne precipitation radars. We have adapted this code to produce data files as close as possible to the TRMM file specifications. In this paper, we will describe the model as it is currently implemented, and show some samples of the synthetic data sets.

Jones, Jeffrey A.↗

Simulating Responses of Gravitational-Wave Instrumentation

Synthetic LISA is a computer program for simulating the responses of the instrumentation of the NASA/ESA Laser Interferometer Space Antenna (LISA) mission, the purpose of which is to detect and study gravitational waves. Synthetic LISA generates synthetic time series of the LISA fundamental noises, as filtered through all the time-delay-interferometry (TDI) observables. (TDI is a method of canceling phase noise in temporally varying unequal-arm interferometers.) Synthetic LISA provides a streamlined module to compute the TDI responses to gravitational waves, according to a full model of TDI (including the motion of the LISA array and the temporal and directional dependence of the arm lengths). Synthetic LISA is written in the C++ programming language as a modular package that accommodates the addition of code for specific gravitational wave sources or for new noise models. In addition, time series for waves and noises can be easily loaded from disk storage or electronic memory. The package includes a Python-language interface for easy, interactive steering and scripting. Through Python, Synthetic LISA can read and write data files in Flexible Image Transport System (FITS), which is a commonly used astronomical data format.

Armstrong, John↗

Probing topological spin liquids on a programmable quantum simulator

Synthesizing topological order Topologically ordered matter exhibits long-range quantum entanglement. However, measuring this entanglement in real materials is extremely tricky. Now, two groups take a different approach and turn to synthetic systems to engineer the topological order of the so-called toric code type (see the Perspective by Bartlett). Satzinger et al . used a quantum processor to study the ground state and excitations of the toric code. Semeghini et al . detected signatures of a toric code–type quantum spin liquid in a two-dimensional array of Rydberg atoms held in optical tweezers. —JS

Science & Technology - Other Topics↗

3D Cloud Tomography and Droplet Size Retrieval from Multi-Angle Polarimetric Imaging of Scattered Sunlight from Above

Tomography aims to recover a three-dimensional (3D) density map of a medium or an object. In medical imaging,it is extensively used for diagnostics via X-ray computed tomography (CT). We define and derive a tomographyof cloud droplet distributions via passive remote sensing. We use multi-view polarimetric images to fit a 3Dpolarized radiative transfer (RT) forward model. Our motivation is 3D volumetric probing of vertically-developedconvectively-driven clouds that are ill-served by current methods in operational passive remote sensing. Currenttechniques are indeed based on strictly 1D RT modeling and applied to a single cloudy pixel, where cloud geometrydefaults to that of a plane-parallel slab. Incident unpolarized sunlight, once scattered by cloud droplets, changesits polarization state according to droplet size. Therefore, polarimetric measurements in the rainbow and gloryangular regions can be used to infer the droplet size distribution. This work defines and derives a framework for afull 3D tomography of cloud droplets for both their mass concentration in space and their distribution across arange of sizes. This gridded 3D retrieval of key microphysical properties is made tractable by our novel approachthat involves a restructuring and partial linearization of an open-source polarized 3D RT code to accommodate aspecial two-step iterative optimization technique. Physically-realistic synthetic clouds are used to demonstrate themethodology with rigorous uncertainty quantification, while a real-world cloud imaged by AirMSPI is processedto illustrate the new remote sensing capability

Schechner, Yoav Y.↗

Space Synthetic Biology Project

Synthetic biology is an effort to make genetic engineering more useful by standardizing sections of genetic code. By standardizing genetic components, biological engineering will become much more similar to traditional fields of engineering, in which well-defined components and subsystems are readily available in markets. Specifications of the behavior of those components and subsystems can be used to model a system which incorporates them. Then, the behavior of the novel system can be simulated and optimized. Finally, the components and subsystems can be purchased and assembled to create the optimized system, which most often will exhibit behavior similar to that indicated by the model. The Space Synthetic Biology project began in 2012 as a multi-Center effort. The purpose of this project was to harness Synthetic Biology principals to enable NASA's missions. A central target for application was to Environmental Control & Life Support (ECLS). Engineers from NASA Marshall Space Flight Center's (MSFC's) ECLS Systems Development Branch (ES62) were brought into the project to contribute expertise in operational ECLS systems. Project lead scientists chose to pursue the development of bioelectrochemical technologies to spacecraft life support. Therefore, the ECLS element of the project became essentially an effort to develop a bioelectrochemical ECLS subsystem. Bioelectrochemical systems exploit the ability of many microorganisms to drive their metabolisms by direct or indirect utilization of electrical potential gradients. Whereas many microorganisms are capable of deriving the energy required for the processes of interest (such as carbon dioxide (CO2) fixation) from sunlight, it is believed that subsystems utilizing electrotrophs will exhibit smaller mass, volume, and power requirements than those that derive their energy from sunlight. In the first 2 years of the project, MSFC personnel conducted modeling, simulation, and conceptual design efforts to assist the project in selecting the best approaches to the application of bioelectrochemical technologies to ECLS. Figure 1 shows results of simulation of charge transport in an experimental system. Figure 2 shows one of five conceptual designs for ECLS subsystems based on bioelectrochemical reactors. Also during the first 2 years, some work was undertaken to gather fundamental data (conductivities, overpotentials) relevant to the modeling efforts.

Howard, David↗

The Seismic Signatures of Recently Formed Impact Craters on Mars

We investigated the seismic signatures of recent impact crater clusters on Mars that would be recorded by the Interior Exploration using Seismic Investigations, Geodesy and Heat Transport (InSight)seismometers. We used a database of 77 measured and dated impact sites, with craters with diameters between 2.1 and 33.8 m, along with inferred impact angle, bolide trajectory, and varying target material properties to empirically scale for the momentum, expected seismic source function, and radiation pattern of impacts. The impact source is simulated in a local 3‐Dfinite difference wave propagation code and coupled to teleseismic distances by scaling the spectra of 1‐D global synthetic seismograms. We use the InSight seismometer noise floors to estimate detectability of impact(s) across azimuth and distance. Our experiments reveal that impact clusters have a higher peak corner frequency resulting from energy contributed by smaller craters to the power spectrum. We also find that the time separation between individual impacts in a cluster is small (<10–15 ms) and requires a seismometer closely situated to the source (<10 km) and a high sampling rate (>100 Hz) to resolve individual impacts within the cluster. Two of the clusters in our database(>20‐m effective diameter) would have been detectable by InSight, with the assumptions that the Martian background noise and seismic attenuation are both low. Joint detection of surface changes from newly formed crater(s) in images and by InSight will provide precise source locations that are crucial for constraining the internal structure of Mars

N. C. Schmerra↗

Quantifying Errors in 3D CME Parameters Derived from Synthetic Data Using White-Light Reconstruction Techniques

Current efforts in space weather forecasting of CMEs have been focused on predicting their arrival time and magnetic structure. To make these predictions, methods have been developed to derive the true CME speed, size, position, and mass, among others. Difficulties in determining the input parameters for CME forecasting models arise from the lack of direct measurements of the coronal magnetic fields and uncertainties in estimating the CME 3D geometric and kinematic parameters after eruption. White-light coronagraph images are usually employed by a variety of CME reconstruction techniques that assume more or less complex geometries. This is the first study from our International Space Science Institute (ISSI) team “Understanding Our Capabilities in Observing and Modeling Coronal Mass Ejections”, in which we explore how subjectivity affects the 3D CME parameters that are obtained from the Graduated Cylindrical Shell (GCS) reconstruction technique, which is widely used in CME research. To be able to quantify such uncertainties, the “true” values that are being fitted should be known, which are impossible to derive from observational data. We have designed two different synthetic scenarios where the “true” geometric parameters are known in order to quantify such uncertainties for the first time. We explore this by using two sets of synthetic data: 1) Using the ray-tracing option from the GCS model software itself, and 2) Using 3D magnetohydrodynamic (MHD) simulation data from the Magnetohydrodynamic Algorithm outside a Sphere code. Our experiment includes different viewing configurations using single and multiple viewpoints. CME reconstructions using a single viewpoint had the largest errors and error ranges overall for both synthetic GCS and simulated MHD white-light data. As the number of viewpoints increased from one to two, the errors decreased by approximately 4° in latitude, 22° in longitude, 14° in tilt, and 10° in half-angle. Our results quantitatively show the critical need for at least two viewpoints to be able to reduce the uncertainty in deriving CME parameters. We did not find a significant decrease in errors when going from two to three viewpoints for our specific hypothetical three spacecraft scenario using synthetic GCS white-light data. As we expected, considering all configurations and numbers of viewpoints, the mean absolute errors in the measured CME parameters are generally significantly higher in the case of the simulated MHD white-light data compared to those from the synthetic white-light images generated by the GCS model. We found the following CME parameter error bars as a starting point for quantifying the minimum error in CME parameters from white-light reconstructions: Δθ (latitude)=6° +2° -3° , Δϕ (longitude)=11° +18° -6° , Δγ (tilt)=25° +8° -7° , Δx (half-angle)=10° +12° -6° , Δh (height)=0.6 +1.2 -0.4 R ⨀ , and Δκ (ratio)=0.1 +0.03 -0.02 .

Coronal mass ejections↗

Quantifying Errors in 3D CME Parameters Derived From Synthetic Data Using White-Light Reconstruction Techniques

Current efforts in space weather forecasting of CMEs have been focused on predicting their arrival time and magnetic structure. To make these predictions, methods have been developed to derive the true CME speed, size, position, and mass, among others. Difficulties in determining the input parameters for CME forecasting models arise from the lack of direct measurements of the coronal magnetic fields and uncertainties in estimating the CME 3D geometric and kinematic parameters after eruption. White-light coronagraph images are usually employed by a variety of CME reconstruction techniques that assume more or less complex geometries. This is the first study from our International Space Science Institute (ISSI) team “Understanding Our Capabilities in Observing and Modeling Coronal Mass Ejections”, in which we explore how subjectivity affects the 3D CME parameters that are obtained from the Graduated Cylindrical Shell (GCS) reconstruction technique, which is widely used in CME research. To be able to quantify such uncertainties, the “true” values that are being fitted should be known, which are impossible to derive from observational data. We have designed two different synthetic scenarios where the “true” geometric parameters are known in order to quantify such uncertainties for the first time. We explore this by using two sets of synthetic data: 1) Using the ray-tracing option from the GCS model software itself, and 2) Using 3D magnetohydrodynamic (MHD) simulation data from the Magnetohydrodynamic Algorithm outside a Sphere code. Our experiment includes different viewing configurations using single and multiple viewpoints. CME reconstructions using a single viewpoint had the largest errors and error ranges overall for both synthetic GCS and simulated MHD white-light data. As the number of viewpoints increased from one to two, the errors decreased by approximately 4° in latitude, 22° in longitude, 14° in tilt, and 10° in half-angle. Our results quantitatively show the critical need for at least two viewpoints to be able to reduce the uncertainty in deriving CME parameters. We did not find a significant decrease in errors when going from two to three viewpoints for our specific hypothetical three spacecraft scenario using synthetic GCS white-light data. As we expected, considering all configurations and numbers of viewpoints, the mean absolute errors in the measured CME parameters are generally significantly higher in the case of the simulated MHD white-light data compared to those from the synthetic white-light images generated by the GCS model. We found the following CME parameter error bars as a starting point for quantifying the minimum error in CME parameters from white-light reconstructions: Δθ (latitude)=6° +2° -3° , Δϕ (longitude)=11° +18° -6° , Δγ (tilt)=25° +8° -7° , Δx (half-angle)=10° +12° -6° , Δh (height)=0.6 +1.2 -0.4 R ⨀ , and Δκ (ratio)=0.1 +0.03 -0.02 .

Coronal mass ejections↗