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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.
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A Riemannian metric for spectral data is introduced to efficiently compute shape matching distances for material retrosynthesis in high-throughput autonomous laboratories.
Abstract not provided.
Enhancers are important non-coding elements, but they have traditionally been hard to characterize experimentally. The development of massively parallel assays allows the characterization of large numbers of enhancers for the first time. Here, we developed a framework using Drosophila STARR-seq to create shape-matching filters based on meta-profiles of epigenetic features. We integrated these features with supervised machine-learning algorithms to predict enhancers. We further demonstrated that our model could be transferred to predict enhancers in mammals. We comprehensively validated the predictions using a combination of in vivo and in vitro approaches, involving transgenic assays in mice and transduction-based reporter assays in human cell lines (153 enhancers in total). The results confirmed that our model can accurately predict enhancers in different species without re-parameterization. Finally, we examined the transcription factor binding patterns at predicted enhancers versus promoters. Here, we demonstrated that these patterns enable the construction of a secondary model that effectively distinguishes enhancers and promoters.
Molecular dynamics (MD) simulations present a data-mining challenge, given that they can generate a considerable amount of data but often rely on limited or biased human interpretation to examine their information content. By not asking the right questions of MD data we may miss critical information hidden within it. Here we combine dimensionality reduction (UMAP) and unsupervised hierarchical clustering (HDBSCAN) to quantitatively characterize prevalent coordination environments of chemical species within MD data. By focusing on local coordination, we significantly reduce the amount of data to be analyzed by extracting all distinct molecular formulas within a given coordination sphere. We then efficiently combine UMAP and HDBSCAN with alignment or shape-matching algorithms to partition these formulas into structural isomer families indicating their relative populations. The method was employed to reveal details of cation coordination in electrolytes based on molecular liquids.
The magnetic field topology and error fields are measured in the MUSE permanent magnet stellarator with an electron beam and fluorescent rod. The effective magnetization of the magnets is determined by measuring rational flux surface locations. Electron magnetic drift effects must be considered self-consistently due to the small magnetic shear on MUSE. Error fields are characterized by flux surface shape deviation and magnetic island chain width and phase. Error fields are then corrected by adjusting the permanent magnet (PM) holders as rigid bodies. Resonant error fields are on the order of or smaller than 3 x 10 -6 of the toroidal field after correction and surface shape matches well with the design. Resonant components of the quasi-symmetry deviation are estimated, using a novel magnetic drift measurement, to be in the 10 −4 range. The PM approach is validated as a low-cost and precise way to build optimized stellarators.
In preparation for the upcoming MAST-U campaign, pedestal stability of spherical tokamaks is revisited by investigating standard H-mode discharges on MAST. As a step beyond previous studies, both ion and electron profiles are used for obtaining equilibria and a diverse set of pedestals is evaluated. Stability analysis with the ELITE and CGYRO codes shows that MAST pedestals are constrained by kinetic ballooning modes and medium toroidal mode number peeling-ballooning modes, with most unstable modes ranging from n = 25 to n = 45. In discharges with a steep q profile at the edge a larger number of poloidal harmonics is excited for each toroidal mode. In conclusion, a comparison with discharges on DIII-D with matched shape and similar non-dimensional parameters indicates that the increased shear at lower aspect ratio stabilizes low n peeling modes.
Surface ion traps are a promising platform for quantum computing due to their potential to store large numbers of ions that can be addressed by electrical and optical control signals in order to implement quantum algorithms. Increasing the power of the quantum computer requires increasing the number of ions, but this poses a significant challenge in that it leads to a non-linear increase in on-chip power dissipation. The primary contributor to this power scaling in current devices is the capacitance between the radio frequency (RF) electrode and the metal plane that shields the silicon substrate from the RF signals applied to it. Silicon has traditionally been chosen for the substrate material for compatibility with the processing required for multi-metal-level traps. In this work, we address these capacitance and fabrication challenges by replacing the commonly used silicon substrate with an insulating sapphire substrate to fabricate a multi-metal-level ion trap, while still employing common semiconductor manufacturing techniques. This change in substrate allows the design to remove the metal shielding from the device design, reducing the capacitance of the RF electrode. The electrical characteristics of these traps were measured, specifically trap impedance, capacitance, and voltage breakdown, and compared to nearly identical silicon trap devices. Finally, we used laser cutting techniques to shape a sapphire wafer into bowtie shapes matching silicon traps previously fabricated at Sandia National Labs to explore solutions for integrating sapphire substrates into non-rectangular ion trap designs.
CaptureFOAM provides utilities for fast and accurate direct air capture (DAC) contactor simulations, based on the OpenFOAM framework. At the core, CaptureFOAM is a suite of mass transfer and chemistry models built upon the OpenFOAM thin film model, which allows coarser mesh resolution and less constrictive time step requirements when compared to a traditional volume of fluid approach. This allows CaptureFOAM to conduct device-scale simulations for complex geometries including commercial packing materials and novel contactor shapes, matching experimental results in a wide variety of applications.
Among the various aspects of the present disclosure is the provision of systems for producing radioisotopes and improving the specific activity of radioisotopes (e.g., Cu-64 chloride). As described herein, the system includes a target material area or target material shape that matches the proton beam strike area or proton beam strike shape, resulting in optimal thickness with less target material required.
Plasma discharges with a negative triangularity (δ=−0.4) shape have been created in the DIII-D tokamak with a significant normalized beta (βN=2.7) and confinement characteristic of the high confinement mode (H98y2=1.2) despite the absence of an edge pressure pedestal and no edge localized modes (ELMs). These inner-wall-limited plasmas have a similar global performance as a positive triangularity (δ=+0.4) ELMing H-mode discharge with the same plasma current, elongation and cross sectional area. For cases both of dominant electron cyclotron heating with Te/Ti>1 and dominant neutral beam injection heating with Te/Ti=1, turbulent fluctuations over radii 0.5<ρ<0.9 were reduced by 10–50% in the negative triangularity shape compared to the matching positive triangularity shape, depending on the radius and conditions.
Function follows form in biology, and the binding of small molecules requires proteins with pockets that match the shape of the ligand. For design of binding to symmetric ligands, protein homo-oligomers with matching symmetry are advantageous as each protein subunit can make identical interactions with the ligand. Here, we describe a general approach to designing hyperstable C2 symmetric proteins with pockets of diverse size and shape. We first designed repeat proteins that sample a continuum of curvatures but have low helical rise, then docked these into C2 symmetric homodimers to generate an extensive range of C2 symmetric cavities. We used this approach to design thousands of C2 symmetric homodimers, and characterized 101 of them experimentally. Of these, the geometry of 31 were confirmed by small angle X-ray scattering and 2 were shown by crystallographic analyses to be in close agreement with the computational design models. These scaffolds provide a rich set of starting points for binding a wide range of C2 symmetric compounds.
Experiments on the DIII-D tokamak have advanced the operational limits of wide pedestal quiescent H-mode (WPQH) plasmas towards increased ITER relevance by simultaneously demonstrating well-matched plasma shape and net zero injected torque. Wide pedestal QHmodes are a compelling candidate regime for a future power producing device because they maintain a stationary pedestal without ELMs via additional edge transport. The pedestal is wider than what would be predicted from kinetic ballooning mode physics due to enhanced edge transport generated by broadband turbulence, a limit cycle oscillation, or some combination thereof. Here, compared to the double null shape, the lower single null shape is observed to have a lower density, narrower pedestal width, larger density fluctuations over a broad range of wavenumber, and operates closer to the peeling-ballooning instability boundary calculated from the simple pedestal scaling, Δ ψΝ , which is still observed to be wider than the EPED prediction.
Plasma-based accelerators (PBAs) driven by either intense lasers (laser wakefield accelerators, LWFAs) or particle beams (plasma wakefield accelerators, PWFAs), can accelerate charged particles at extremely high gradients compared to conventional radio-frequency (RF) accelerators. In the past two decades, great strides have been made in this field, making PBA a candidate for next-generation light sources and colliders. However, these challenging applications necessarily require beams with good stability, high quality, controllable polarization and excellent reproducibility. To date, such beams are generated only by conventional RF accelerators. As such, it is important to demonstrate the injection and acceleration of beams first produced using a conventional RF accelerator, by a PBA. In some recent studies on LWFA staging and external injection-acceleration in PWFA only a very small fraction (from below 0.1% to few percent) of the injected charge (the coupling efficiency) was accelerated. For future colliders where beam energy will need to be boosted using multiple stages, the coupling efficiency per stage must approach 100%. Here we report the first demonstration of external injection from a photocathode-RF-gun-based conventional linear accelerator (LINAC) into a LWFA and subsequent acceleration without any significant loss of charge or degradation of quality, which is achieved by properly shaping and matching the beam into the plasma structure. Furthermore, this is an important step towards realizing a high-throughput, multi-stage, high-energy, hybrid conventional-plasma accelerator.
There is a need to measure the sensitivity of the image plate scanners used to scan Z shot data. The Carestream HPX-1 image plate scanner was tested, and its performance was characterized to determine the system sensitivity in terms of signal per incident photon as a function of x-ray energy. A Manson source was used to simultaneously expose an Amptek x-ray multi-channel analyzer and image plates, allowing for a comparison of the counts as a function of energy to the signal recorded on the image plates. NIST-certified radioactive sources were used to assign an absolute sensitivity. Results indicate that the HPX-1 scanner response matches the shape of the modeled response, allowing for absolute scaling using NIST-certified radioisotope sources. The HPX-1 scanner shows a stable response with measurements taken over one week. In contrast, the sensitivity of the DITABIS scanner was characterized using the same approach, but it exhibits changes in its response that varied by more than 50% over the span of 4 days.
This study explores the updraft and downdraft properties of mature stage mesoscale convective systems (MCSs) in terms of draft core width, shape, intensity, and mass flux characteristics. The observations use extended radar wind profiler (RWP) and surveillance radar datasets from the U.S. Department of Energy Atmospheric Radiation Measurement program for midlatitude (Oklahoma, USA) and tropical (Amazon, Brazil) sites. MCS drafts behave qualitatively similar to previous aircraft and RWP cloud summaries. The Oklahoma MCSs indicate larger and more intense convective up- and downdraft cores, and greater mass flux than Amazon MCS counterparts. However, similar size-intensity relationships and draft vertical profile behaviors are observed for both regions. Additional similarities include weak positive correlations between core intensity and core width (correlation coefficient r ~ 0.5), and increases in draft intensity with altitude. A model-observational intercomparison for draft properties (core width, intensity, mass flux) is also performed to illustrate the potential usefulness of statistical observed draft characterizations. Idealized simulations with the Weather Research and Forecasting model aligned with midlatitude MCS conditions are performed at model grid spacings (?x) that range from 4 km to 250 m. It is shown that the simulations performed at ?x = 250 m at similar mature MCS lifecycle stages are those that exhibit draft intensity, width, mass flux, and shape parameter performances best matching with observed properties.
Abstract The frequency distribution of solar wind protons, measured in the vicinity of Earth’s orbit, is customarily plotted in ( β ∥ , T ⊥ / T ∥ ) phase space. Here, T ⊥ / T ∥ is the ratio of perpendicular and parallel temperatures, and β ∥ = 8 π nT ∥ / B 2 is the ratio of parallel thermal energy to background magnetic field energy, the so-called “parallel beta,” with ⊥ and ∥ denoting directions with respect to the ambient magnetic field. Such a frequency distribution, plotted as a two-dimensional histogram, forms a peculiar rhombic shape defined with an outer boundary in the said phase space. Past studies reveal that the threshold conditions for temperature anisotropy–driven plasma instability partially account for the boundary on the high- β ∥ side. The low- β ∥ side remains largely unexplained despite some efforts. Work by Vafin et al. recently showed that certain contours of collisional relaxation frequency, ν pp , when parameterized by T ⊥ / T ∥ and β ∥ , could match the overall shape of the left-hand boundary, thus suggesting that the collisional relaxation process might be closely related to the formation of the left-hand boundary. The present paper extends the analysis by Vafin et al. and carries out the dynamical computation of the collisional relaxation process for an ensemble of initial proton states with varying degrees of anisotropic temperatures. The final states of the relaxed protons are shown to closely match the observed boundary to the left of the ( β ∥ , T ⊥ / T ∥ ) phase space. When coupled with a similar set of calculations for the ensemble in the collective instability regime, it is found that the combined collisional/collective effects provide the baseline explanation for the observation.
We report in regimes of high strain rate, the strength of materials often cannot be measured directly in experiments. Instead, the strength is inferred based on an experimental observable, such as a change in shape, that is matched by simulations supported by a known strength model. In hole closure experiments, the rate and degree to which a central hole in a plate of material closes during a dynamic loading event are used to infer material strength parameters. Due to the complexity of the experiment, many computationally expensive, three-dimensional simulations are necessary to train an emulator for calibration or other analyses. These simulations can be run at multiple grid resolutions, where dense grids are slower but more accurate. In an effort to reduce the computational cost, a combination of simulations with different resolutions can be combined to develop an accurate emulator within a limited training time. We explore the novel design and construction of an appropriate functional recursive multi-fidelity emulator of a strength model for tantalum in hole closure experiments that can be applied to arbitrarily large training data. Hence, by formulating a multi-fidelity model to employ low-fidelity simulations, we were able to reduce the error of our emulator by approximately 81% with only an approximately 1.6% increase in computing resource utilization.