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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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At least 1,297 records · Page 72
All sourcesNASA NTRSDOE OSTI
DOE OSTI2016

Ab Initio Molecular Dynamics of Uranium Incorporated in Goethite (α-FeOOH): Interpretation of X-ray Absorption Spectroscopy of Trace Polyvalent Metals

Incorporation of economically or environmentally consequential polyvalent metals into iron (oxyhydr)oxides has applications in environmental chemistry, remediation, and materials science. A primary tool for characterizing the local coordination environment of such metals, and therefore building models to predict their behavior, is extended X-ray absorption fine structure spectroscopy (EXAFS). Accurate structural information can be lacking, yet is required to constrain and inform data interpretation. In this regard, ab initio molecular dynamics (AIMD) was used to calculate the local coordination environment of minor amounts of U incorporated in the structure of goethite (α-FeOOH). U oxidation state (VI, V, and IV) and charge compensation scheme (CCS) were varied. Simulated trajectories were used to calculate the U LIII-edge EXAFS function and fit experimental EXAFS data for U incorporated into goethite under reducing conditions. Calculations that closely matched the U EXAFS of the well-characterized mineral uraninite (UO2), and constrained the S02 parameter to be 0.909, validated the approach. The results for the U-goethite system indicated that U(V) substituted for structural Fe(III) in octahedral uranate coordination. Charge balance was achieved by the loss of one structural proton coupled to injection of one electron into the solid (–1 H+, + 1 e-). The ability of AIMD to model higher-energy states thermally accessible at room temperature is particularly relevant for protonated systems such as goethite, where proton transfers between adjacent octahedra had a dramatic effect on the calculated EXAFS. Vibrational effects as a function of temperature were also estimated using AIMD, allowing separate quantification of thermal and configurational disorder. In summary, coupling AIMD structural modeling and EXAFS experiments enables modeling of the redox behavior of polyvalent metals that are incorporated in conductive materials such as iron (oxyhydr)oxides, with applications over a broad swath of chemistry and materials science.

36 MATERIALS SCIENCE↗
DOE OSTI2025

DONKEY: A Flexible and Accurate Algorithm for Clustering

We propose an accurate clustering algorithm suitable for the varied and multidimensional data sets that correspond to temporal snapshots from on-the-fly nonadiabatic trajectory-based simulations of photoexcited dynamics. The algorithm approximates the underlying probability density function using variable kernel density estimation, with local maxima corresponding to cluster centers. Each data point is then assigned to one of the maxima by employing a maximization procedure. Finally, clusters artificially separated by minor fluctuations in the probability density are merged. The algorithm does not require parameter tuning, which ensures flexibility and reduces the risk of bias. It is tested on several synthetic data sets, where it consistently outperforms conventional clustering algorithms. As a final example, the algorithm is applied to the excited dynamics of the norbornadiene ⇌ quadricyclane (C 7 H 8 ) molecular photoswitch, demonstrating how distinct reaction pathways can be identified.

algorithms↗
DOE OSTI2020

A Multiple Filter Based Neural Network Approach to the Extrapolation of Adsorption Energies on Metal Surfaces for Catalysis Applications

Computational catalyst discovery involves the development of microkinetic reactor models based on estimated parameters determined from density functional theory (DFT). For complex surface chemistries, the number of reaction intermediates can be very large, and the cost of calculating the adsorption energies by DFT for all surface intermediates even for one active site model can become prohibitive. In this paper, we have identified appropriate descriptors and machine learning models that can be used to predict a significant part of these adsorption energies given data on the rest of them. Furthermore, our investigations also included the case when the species data used to train the predictive model are of different size relative to the species the model tries to predict—this is an extrapolation in the data space which is typically difficult with regular machine learning models. Due to the relative size of the available data sets, we have attempted to extrapolate from the larger species to the smaller ones in the current work. Here, we have developed a neural network based predictive model that combines an established additive atomic contribution based model with the concepts of a convolutional neural network that, when extrapolating, achieves a statistically significant improvement over the previous models.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2019

Towards Prediction of Non-Radiative Decay Pathways in Organic Compounds I: The Case of Naphthalene Quantum Yields

Many emerging technologies depend on human’s ability to control and manipulate the excited-state properties of molecular systems. These technologies include fluorescent labeling in biomedical imaging, light harvesting in photovoltaics, and electroluminescence in light-emitting devices. All of these systems suffer from non-radiative loss pathways that dissipate electronic energy as heat, which causes the overall system efficiency to be directly linked to quantum yield (Φ) of the molecular excited state. Unfortunately, Φ is very difficult to predict from first principles because the description of a slow non-radiative decay mechanism requires an accurate description of long-timescale excited-state quantum dynamics. In the present study, we introduce an efficient semi-empirical method of calculating the fluorescence quantum yield (Φ fl ) for molecular chromophores, which converts simple electronic energies computed using time-dependent density functional theory (TDDFT) into an estimate of Φ fl . As with all machine learning strategies, the algorithm needs to be trained on fluorescent dyes for which Φ fl ’s are known, so as to provide a black-box method which can later predict Φfl’s for chemically similar chromophores that have not been studied experimentally. Here, as a first illustration of how our proposed algorithm can be trained, we examine a family of 25 naphthalene derivatives. The simplest application of the energy gap law is found to be inadequate to explain the rates of internal conversion (IC) or intersystem crossing (ISC) – the electronic properties of at least one higher-lying electronic state (S n or T n ) or one far-from-equilibrium geometry are typically needed to obtain accurate results. Indeed, the key descriptors turn out to be the transition state between the Franck–Condon minimum and a distorted local minimum near an S 0 /S 1 conical intersection (which governs IC) and the magnitude of the spin-orbit coupling (which governs ISC). The resulting Φ fl ’s are predicted with reasonable accuracy (~ 22%), making our approach a promising ingredient for high-throughput screening and rational design of the molecular excited states with desired Φ fl ’s. We thus conclude that our model, while semi-empirical in nature, does in fact extract sound physical insight into the challenge of describing non-radiative relaxations.

36 MATERIALS SCIENCE↗
DOE OSTI2025

Coherent Spins in van der Waals Semiconductor GeS 2 at Ambient Conditions

Optically active spin defects in van der Waals (vdW) materials have emerged as versatile quantum sensors, enabling applications for a wide range of quantum phenomena in condensed matter systems. Their ease of exfoliation and compatibility with device integration make them promising candidates for future quantum technologies. Here we report the observation and room-temperature coherent control of ensemble spin defects in the high-temperature crystalline phase of germanium disulfide (β-GeS 2 ), a two-dimensional (2D) semiconductor with low nuclear spin density. The defects exhibit spin-1/2 behavior, and their dynamics can be explained by a weakly coupled spin-pair model. We implement dynamical decoupling techniques to extend the coherence time (T 2 ) by a factor of 20. Finally, we use density functional theory (DFT) calculations to estimate the structures and spin densities of two possible spin defect candidates. This work will help to expand the field of quantum sensing with spin defects in 2D materials.

2D materials↗
DOE OSTI2020

Emergence of unprecedented climate change in projected future precipitation

The future time of emergence when precipitation changes due to anthropogenic influences begins to continuously exceed the previous maximum value is defined as the ‘tipping year’ Historical experiments and future experiments simulated by state-of-the-art climate models were utilized. A total of 510,000 time series from year 1856 to 2095 were generated by sampling the natural internal variability in precipitation. The time evolutions of internal variability in the whole time period were estimated from the combination of past and future experiments with preindustrial control experiments. A large ensemble size enabled an estimation of the probability density function of the tipping year at each grid point, providing precise information on the uncertainty of the projection. The tipping year of average precipitation emerges earlier in high latitudes than in lower latitudes. In some regions in lower latitudes and mid-latitudes, the tipping year of intense precipitation emerges faster than that of average precipitation. The tipping years of average and intense precipitation are earlier for higher anthropogenic forcing scenarios than for lower scenarios. The global average of the tipping year for intense precipitation might be attributed to the enhancement of the thermodynamic effect (moisture) rather than the dynamic effect (vertical motion).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2015

Gelation of Fmoc-diphenylalanine is a first order phase transition

We explore the gel transition of the aromatic dipeptide derivative molecule fluorenylmethoxycarbonyl-diphenylalanine (Fmoc-FF). The addition of water to a solution of Fmoc-FF in dimethyl sulfoxide (DMSO) results in increased attractions leading to self-assembly of Fmoc-FF molecules into a space-filling fibrous network. We provide evidence that gel formation is associated with a first order phase transition resulting in nucleation and growth of strongly anisotropic crystals with high aspect ratios. The strength of attraction between Fmoc-FF molecules as a function of water concentration is estimated from long-time self-diffusion measurements using 1H NMR diffusion-ordered spectroscopy (DOSY). The resulting phase behavior follows that observed for a wide range of other crystallizing nanoparticles and small molecules – a result consistent with the short-range nature of the intermolecular attractions. Furthermore, we use NMR to measure the rate of increase in the fraction of bound Fmoc-FF molecules after water is suddenly mixed into the system. We observe a lag time in the formation of the new phase indicative of the existence of a free energy barrier to the formation of a crystal nucleus of critical size. Furthermore, the application of classical nucleation theory for a cylindrical nucleus indicates that one-dimensional crystal growth is driven by an imbalance of the surface energies of the ends and sides of the fiber.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2013

Studies of the fast ion energy spectra in TJ-II

The dynamics of the neutral beam injection fast ions in the TJ-II stellarator is studied in this paper from both the theoretical and experimental points of view. The code Integrator of Stochastic Differential Equations for Plasmas (ISDEP) is used to estimate the fast ion distribution function in 3D:1D in real space and 2D in velocity space, considering the 3D structure of TJ-II, the electrostatic potential, non turbulent collisional transport, and charge exchange losses. The results of ISDEP are compared with the experimental data from the compact neutral particle analyzer, which measures the outgoing neutral flux spectra in the energy range E Element-Of (1-45) keV.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2014

System analysis of force feedback microscopy

It was shown recently that the Force Feedback Microscope (FFM) can avoid the jump-to-contact in Atomic force Microscopy even when the cantilevers used are very soft, thus increasing force resolution. In this letter, we explore theoretical aspects of the associated real time control of the tip position. We take into account lever parameters such as the lever characteristics in its environment, spring constant, mass, dissipation coefficient, and the operating conditions such as controller gains and interaction force. We show how the controller parameters are determined so that the FFM functions at its best and estimate the bandwidth of the system under these conditions.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
DOE OSTI2014

A variable-temperature nanostencil compatible with a low-temperature scanning tunneling microscope/atomic force microscope

We describe a nanostencil lithography tool capable of operating at variable temperatures down to 30 K. The setup is compatible with a combined low-temperature scanning tunneling microscope/atomic force microscope located within the same ultra-high-vacuum apparatus. The lateral movement capability of the mask allows the patterning of complex structures. To demonstrate operational functionality of the tool and estimate temperature drift and blurring, we fabricated LiF and NaCl nanostructures on Cu(111) at 77 K.

77 NANOSCIENCE AND NANOTECHNOLOGY↗
DOE OSTI2014

Metal-phthalocyanine ordered layers on Au(110): Metal-dependent adsorption energy

Iron-phthalocyanine and cobalt-phthalocyanine chains, assembled along the Au(110)-(1×2) reconstructed channels, present a strong interaction with the Au metallic states, via the central metal ion. X-ray photoemission spectroscopy from the metal-2p core-levels and valence band high-resolution ultraviolet photoelectron spectroscopy bring to light signatures of the interaction of the metal-phthalocyanine single-layer with gold. The charge transfer from Au to the molecule causes the emerging of a metal-2p core level component at lower binding energy with respect to that measured in the molecular thin films, while the core-levels associated to the organic macrocycle (C and N 1s) are less influenced by the adsorption, and the macrocycles stabilize the interaction, inducing a strong interface dipole. Temperature Programmed Desorption experiments and photoemission as a function of temperature allow to estimate the adsorption energy for the thin-films, mainly due to the molecule-molecule van der Waals interaction, while the FePc and CoPc single-layers remain adsorbed on the Au surface up to at least 820 K.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2023

Revisiting the pseudo-supercritical path method: An improved formulation for the alchemical calculation of solid–liquid coexistence

Alchemical free energy calculations via molecular dynamics have been applied to obtain thermodynamic properties related to solid–liquid equilibrium conditions, such as melting points. In recent years, the pseudo-supercritical path (PSCP) method has proved to be an important approach to melting point prediction due to its flexibility and applicability. In the present work, we propose improvements to the PSCP alchemical cycle to make it more compact and efficient through a concerted evaluation of different potential energies. The multistate Bennett acceptance ratio (MBAR) estimator was applied at all stages of the new cycle to provide greater accuracy and uniformity, which is essential concerning uncertainty calculations. In particular, for the multistate expansion stage from solid to liquid, we employed the MBAR estimator with a reduced energy function that allows affine transformations of coordinates. Free energy and mean derivative profiles were calculated at different cycle stages for argon, triazole, propenal, and the ionic liquid 1-ethyl-3-methyl-imidazolium hexafluorophosphate. Comparisons showed a better performance of the proposed method than the original PSCP cycle for systems with higher complexity, especially the ionic liquid. Furthermore, a detailed study of the expansion stage revealed that remapping the centers of mass of the molecules or ions is preferable to remapping the coordinates of each atom, yielding better overlap between adjacent states and improving the accuracy of the methodology.

25 ENERGY STORAGE↗
DOE OSTI2024

Optically multiplexed neutron time-of-flight technique for inertial confinement fusion

Neutron time-of-flight (nTOF) detectors are crucial in diagnosing the performance of inertial confinement fusion (ICF) experiments, which implode targets of deuterium–tritium fuel to achieve thermonuclear conditions. These detectors utilize the fusion neutron energy spectrum to extract key measurements, including the hotspot ion temperature and fuel areal density. Previous work [Danly et al., Rev. Sci. Instrum. 94, 043502 (2023)] has demonstrated adding 1D spatial resolution to an nTOF-like detector using a neutron aperture and streak camera to measure the ion temperature profile of an ICF implosion. By contrast, the study presented herein explores modifying the 1D detector to use a fast photomultiplier tube (PMT) to validate the design of a 2D spatially resolved instrument based on reconstruction from 1D profiles. The modification would collect time-of-flight traces from separate scintillators in an imaging array with one PMT using optical fibers of varying lengths to time-multiplex the signals. This technique has been demonstrated in ride-along experiments on the OMEGA laser with 20 fiber-coupled scintillator channels connected to a Photek PMT210. Results provide constraints on the fiber lengths and PMT gating requirements to promote pulse fidelity throughout all channels. Calibration of the detector to fixed nTOFs can provide a preliminary estimate of the instrument response function (IRF), although measurement of the IRF is currently under way. These results suggest that nTOF signals can potentially be time-multiplexed with fibers so long as the design is strategic to mitigate signal-to-noise reduction, modal dispersion, and charge build-up in the PMT, which has implications beyond ion temperature imaging.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2013

An alma survey of submillimeter galaxies in the extended Chandra deep field-south: The agn fraction and X-ray properties of submillimeter galaxies

The large gas and dust reservoirs of submillimeter galaxies (SMGs) could potentially provide ample fuel to trigger an active galactic nucleus (AGN), but previous studies of the AGN fraction in SMGs have been controversial largely due to the inhomogeneity and limited angular resolution of the available submillimeter surveys. Here we set improved constraints on the AGN fraction and X-ray properties of the SMGs with Atacama Large Millimeter/submillimeter Array (ALMA) and Chandra observations in the Extended Chandra Deep Field-South (E-CDF-S). This study is the first among similar works to have unambiguously identified the X-ray counterparts of SMGs; this is accomplished using the fully submillimeter-identified, statistically reliable SMG catalog with 99 SMGs from the ALMA LABOCA E-CDF-S Submillimeter Survey. We found 10 X-ray sources associated with SMGs (median redshift z = 2.3), of which eight were identified as AGNs using several techniques that enable cross-checking. The other two X-ray detected SMGs have levels of X-ray emission that can be plausibly explained by their star formation activity. Six of the eight SMG-AGNs are moderately/highly absorbed, with N {sub H} > 10{sup 23} cm{sup –2}. An analysis of the AGN fraction, taking into account the spatial variation of X-ray sensitivity, yields an AGN fraction of 17{sub −6}{sup +16}% for AGNs with rest-frame 0.5-8 keV absorption-corrected luminosity ≥7.8 × 10{sup 42} erg s{sup –1}; we provide estimated AGN fractions as a function of X-ray flux and luminosity. ALMA's high angular resolution also enables direct X-ray stacking at the precise positions of SMGs for the first time, and we found four potential SMG-AGNs in our stacking sample.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2017

On the synchrotron emission in kinetic simulations of runaway electrons in magnetic confinement fusion plasmas

Developing avoidance or mitigation strategies of runaway electrons (REs) in magnetic confinement fusion (MCF) plasmas is of crucial importance for the safe operation of ITER. In order to develop these strategies, an accurate diagnostic capability that allows good estimates of the RE distribution function in these plasmas is needed. Synchrotron radiation (SR) of RE in MCF, besides of being one of the main damping mechanisms for RE in the high energy relativistic regime, is routinely used in current MCF experiments to infer the parameters of RE energy and pitch angle distribution functions. In the present paper we address the long standing question about what are the relationships between different REs distribution functions and their corresponding synchrotron emission simultaneously including: full-orbit effects, information of the spectral and angular distribution of SR of each electron, and basic geometric optics of a camera. We study the spatial distribution of the SR on the poloidal plane, and the statistical properties of the expected value of the synchrotron spectra of REs. Here we observe a strong dependence of the synchrotron emission measured by the camera on the pitch angle distribution of runaways, namely we find that crescent shapes of the spatial distribution of the SR as measured by the camera relate to RE distributions with small pitch angles, while ellipse shapes relate to distributions of runaways with larger the pitch angles. A weak dependence of the synchrotron emission measured by the camera with the RE energy, value of the q-profile at the edge, and the chosen range of wavelengths is observed. Furthermore, we find that oversimplifying the angular dependence of the SR changes the shape of the synchrotron spectra, and overestimates its amplitude by approximately 20 times for avalanching runaways and by approximately 60 times for mono-energetic distributions of runaways.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2014

CONSTRAINTS ON THE PHYSICAL PROPERTIES OF MAIN BELT COMET P/2013 R3 FROM ITS BREAKUP EVENT

Jewitt et al. recently reported that main belt comet P/2013 R3 experienced a breakup, probably due to rotational disruption, with its components separating on mutually hyperbolic orbits. We propose a technique for constraining physical properties of the proto-body, especially the initial spin period and cohesive strength, as a function of the body's estimated size and density. The breakup conditions are developed by combining mutual orbit dynamics of the smaller components and the failure condition of the proto-body. Given a proto-body with a bulk density ranging from 1000 kg m{sup –3} to 1500 kg m{sup –3} (a typical range of the bulk density of C-type asteroids), we obtain possible values of the cohesive strength (40-210 Pa) and the initial spin state (0.48-1.9 hr). From this result, we conclude that although the proto-body could have been a rubble pile, it was likely spinning beyond its gravitational binding limit and would have needed cohesive strength to hold itself together. Additional observations of P/2013 R3 will enable stronger constraints on this event, and the present technique will be able to give more precise estimates of its internal structure.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

pKPDB: a protein data bank extension database of p Ka and pI theoretical values

Abstract Summary pKa values of ionizable residues and isoelectric points of proteins provide valuable local and global insights about their structure and function. These properties can be estimated with reasonably good accuracy using Poisson–Boltzmann and Monte Carlo calculations at a considerable computational cost (from some minutes to several hours). pKPDB is a database of over 12 M theoretical pKa values calculated over 120k protein structures deposited in the Protein Data Bank. By providing precomputed pKa and pI values, users can retrieve results instantaneously for their protein(s) of interest while also saving countless hours and resources that would be spent on repeated calculations. Furthermore, there is an ever-growing imbalance between experimental pKa and pI values and the number of resolved structures. This database will complement the experimental and computational data already available and can also provide crucial information regarding buried residues that are under-represented in experimental measurements. Availability and implementation Gzipped csv files containing p Ka and isoelectric point values can be downloaded from https://pypka.org/pKPDB. To query a single PDB code please use the PypKa free server at https://pypka.org. The pKPDB source code can be found at https://github.com/mms-fcul/pKPDB. Supplementary information Supplementary data are available at Bioinformatics online.

Reis, Pedro B. P. S. (ORCID:0000000335636239)↗