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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 307 records · Page 17
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Strictly Enforcing Invertibility and Conservation in CNN-Based Super Resolution for Scientific Datasets

Abstract Recently, deep convolutional neural networks (CNNs) have revolutionized image “super resolution” (SR), dramatically outperforming past methods for enhancing image resolution. They could be a boon for the many scientific fields that involve imaging or any regularly gridded datasets: satellite remote sensing, radar meteorology, medical imaging, numerical modeling, and so on. Unfortunately, while SR-CNNs produce visually compelling results, they do not necessarily conserve physical quantities between their low-resolution inputs and high-resolution outputs when applied to scientific datasets. Here, a method for “downsampling enforcement” in SR-CNNs is proposed. A differentiable operator is derived that, when applied as the final transfer function of a CNN, ensures the high-resolution outputs exactly reproduce the low-resolution inputs under 2D-average downsampling while improving performance of the SR schemes. The method is demonstrated across seven modern CNN-based SR schemes on several benchmark image datasets, and applications to weather radar, satellite imager, and climate model data are shown. The approach improves training time and performance while ensuring physical consistency between the super-resolved and low-resolution data. Significance Statement Recent advancements in using deep learning to increase the resolution of images have substantial potential across the many scientific fields that use images and image-like data. Most image super-resolution research has focused on the visual quality of outputs, however, and is not necessarily well suited for use with scientific data where known physics constraints may need to be enforced. Here, we introduce a method to modify existing deep neural network architectures so that they strictly conserve physical quantities in the input field when “super resolving” scientific data and find that the method can improve performance across a wide range of datasets and neural networks. Integration of known physics and adherence to established physical constraints into deep neural networks will be a critical step before their potential can be fully realized in the physical sciences.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Conservation of Dry Air, Water, and Energy in CAM and Its Potential Impact on Tropical Rainfall

Abstract For the Community Atmosphere Model version 6 (CAM6), an adjustment is needed to conserve dry air mass. This adjustment exposes an inconsistency in how CAM6’s energy budget incorporates water—in CAM6 water in the vapor phase has energy, but condensed phases of water do not. When water vapor condenses, only its latent energy is retained in the model, while its remaining internal, potential, and kinetic energy are lost. A global fixer is used in the default CAM6 model to maintain global energy conservation, but locally the energy tendency associated with water changing phase violates the divergence theorem. This error in energy tendency is intrinsically tied to the water vapor tendency, and reaches its highest values in regions of heavy rainfall, where the error can be as high as 40 W m −2 annually averaged. Several possible changes are outlined within this manuscript that would allow CAM6 to satisfy the divergence theorem locally. These fall into one of two categories: 1) modifying the surface flux to balance the local atmospheric energy tendency and 2) modifying the local atmospheric tendency to balance the surface plus top-of-atmosphere energy fluxes. To gauge which aspects of the simulated climate are most sensitive to this error, the simplest possible change—where condensed water still does not carry energy and a local energy fixer is used in place of the global one—is implemented within CAM6. Comparing this experiment with the default configuration of CAM6 reveals precipitation, particularly its variability, to be highly sensitive to the energy budget formulation. Significance Statement This study examines and explains spurious regional sources and sinks of energy in a widely used climate model. These energy errors result from not tracking energy associated with water after it transitions from the vapor phase to either liquid or ice. Instead, the model used a global fixer to offset the energy tendency related to the energy sources and sinks associated with condensed water species. We replace this global fixer with a local one to examine the model sensitivity to the regional energy error and find a large sensitivity in the simulated hydrologic cycle. This work suggests that the underlying thermodynamic assumptions in the model should be revisited to build confidence in the model-simulated regional-scale water and energy cycles.

Harrop, Bryce E.↗
DOE OSTI2022

A numerical approach for detecting switch-like bistability in mass action chemical reaction networks with conservation laws

Theoretical analysis of signaling pathways can provide a substantial amount of insight into their function. One particular area of research considers signaling pathways capable of assuming two or more stable states given the same amount of signaling ligand. This phenomenon of bistability can give rise to switch-like behavior, a mechanism that governs cellular decision making. Investigation of whether or not a signaling pathway can confer bistability and switch-like behavior, without knowledge of specific kinetic rate constant values, is a mathematically challenging problem. Recently a technique based on optimization has been introduced, which is capable of finding example parameter values that confer switch-like behavior for a given pathway. Although this approach has made it possible to analyze moderately sized pathways, it is limited to reaction networks that presume a uniterminal structure. It is this limited structure we address by developing a general technique that applies to any mass action reaction network with conservation laws. In this paper we developed a generalized method for detecting switch-like bistable behavior in any mass action reaction network with conservation laws. The method involves (1) construction of a constrained optimization problem using the determinant of the Jacobian of the underlying rate equations, (2) minimization of the objective function to search for conditions resulting in a zero eigenvalue, (3) computation of a confidence level that describes if the global minimum has been found and (4) evaluation of optimization values, using either numerical continuation or directly simulating the ODE system, to verify that a bistability region exists. The generalized method has been tested on three motifs known to be capable of bistability. We have developed a variation of an optimization-based method for the discovery of bistability, which is not limited to uniterminal chemical reaction networks. Successful completion of the method provides an S-shaped bifurcation diagram, which indicates that the network acts as a bistable switch for the given optimization parameters.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

The crystal structure of a Polerovirus exoribonuclease-resistant RNA shows how diverse sequences are integrated into a conserved fold

Exoribonuclease-resistant RNAs (xrRNAs) are discrete elements that block the progression of 5' to 3' exoribonucleases using specifically folded RNA structures. A recently discovered class of xrRNA is widespread in several genera of plant-infecting viruses, within both noncoding and protein-coding subgenomic RNAs. The structure of one such xrRNA from a dianthovirus revealed three-dimensional details of the resistant fold but did not answer all questions regarding the conservation and diversity of this xrRNA class. Here, we present the crystal structure of a representative polerovirus xrRNA that contains sequence elements that diverge from the previously solved structure. This new structure rationalizes previously unexplained sequence conservation patterns and shows interactions not present in the first structure. Together, the structures of these xrRNAs from dianthovirus and polerovirus genera support the idea that these plant virus xrRNAs fold through a defined pathway that includes a programmed intermediate conformation. This work deepens our knowledge of the structure-function relationship of xrRNAs and shows how evolution can craft similar RNA folds from divergent sequences.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Macroalgal germplasm banking for conservation, food security, and industry

Ex situ seed banking was first conceptualized and implemented in the early 20th century to maintain and protect crop lines. Today, ex situ seed banking is important for the preservation of heirloom strains, biodiversity conservation and ecosystem restoration, and diverse research applications. However, these efforts primarily target microalgae and terrestrial plants. Although some collections include macroalgae (i.e., seaweeds), they are relatively few and have yet to be connected via any international, coordinated initiative. In this piece, we provide a brief introduction to macroalgal germplasm banking and its application to conservation, industry, and mariculture. We argue that concerted effort should be made globally in germline preservation of marine algal species via germplasm banking with an overview of the technical advances for feasibility and ensured success.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

The conserved AAA ATPase PCH-2 distributes its regulation of meiotic prophase events through multiple meiotic HORMADs in C. elegans

During meiotic prophase, the essential events of homolog pairing, synapsis, and recombination are coordinated with meiotic progression to promote fidelity and prevent aneuploidy. The conserved AAA+ ATPase PCH-2 coordinates these events to guarantee crossover assurance and accurate chromosome segregation. How PCH-2 accomplishes this coordination is poorly understood. Here, we provide evidence that PCH-2 decelerates pairing, synapsis and recombination in C. elegans by remodeling meiotic HORMADs. We propose that PCH-2 converts the closed versions of these proteins, which drive these meiotic prophase events, to unbuckled conformations, destabilizing interhomolog interactions and delaying meiotic progression. Further, we find that PCH-2 distributes this regulation among three essential meiotic HORMADs in C. elegans: PCH-2 acts through HTP-3 to regulate pairing and synapsis, HIM-3 to promote crossover assurance, and HTP-1 to control meiotic progression. In addition to identifying a molecular mechanism for how PCH-2 regulates interhomolog interactions, our results provide a possible explanation for the expansion of the meiotic HORMAD family as a conserved evolutionary feature of meiosis. Taken together, our work demonstrates that PCH-2’s remodeling of meiotic HORMADs has functional consequences for the rate and fidelity of homolog pairing, synapsis, recombination and meiotic progression, ensuring accurate meiotic chromosome segregation.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

AmeriFlux US-xSC NEON Smithsonian Conservation Biology Institute (SCBI)

This is the AmeriFlux version of the carbon flux data for the site US-xSC NEON Smithsonian Conservation Biology Institute (SCBI). Site Description - The Smithsonian Conservation Biology Institute (SCBI) site is a mid-continent forested eastern deciduous site, species include Oaks, Hickories, and Ash, and contains well defined ground cover and understory strata.

Network), NEON (National Ecological Observatory↗
DOE OSTI2020

Conservative Estimation of Tail Probabilities from Limited Sample Data

Several sparse-sample uncertainty quantification (UQ) methods are compared for conservative but not overly conservative estimation of small tail probabilities involving responses that lay beyond specified thresholds in the tails of probability distributions. Sixteen very differently shaped distributions (or probability density functions, PDFs) and tail probability magnitudes ranging from 10 -5 to 10 -1 are considered in order for the study to be relevant to a wide range of risk analysis and quantification of margins and uncertainty (QMU) problems. The emphasis of the study is on limited data regimes ranging from N = 2 to 20 samples, reflective of most experimental and some expensive computational situations. Relatively simple sparse-sample UQ methods tested for this regime involve statistical tolerance interval "Equivalent Normal and related "Ensemble of Normals" and "Superdistribution (SD) approaches. (The independently derived SD is effectively equivalent to the Bayesian posterior predictive distribution given the assumptions of the derivation.) The performance of the methods was generally improved for N ≥ 5 samples with a generalized Jackknife resampling technique, which determines a tail probability estimate by averaging estimates from smaller sub-samples. Several quantitative metrics for method conservatism and accuracy of tail probability estimation are used to assess and rank the methods' performance over many random trials for each test PDF and probability magnitude. A variant of Bootstrap resampling was also tried, but did not significantly improve tail probability estimates in most cases. Detailed results are presented from over 100-million tests over the above factors that provide useful granular information on which methods or combination of methods perform best in various areas of the factor space.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2022

Resolution requirements for energy conservation in kinetic plasma simulations

The kinetic codes used to model the coupled dynamics of electromagnetic fields and charged particle transport have requirements for spatial, temporal, and charge resolution. These requirements may vary by the solution technique and scope of the problem. In this report, we investigate the resolution limits in the energy-conserving implicit particle-in-cell code CHICAGO. This report has the narrow aim of determining the maximum acceptable grid spacing for the dense plasmas generated in models of z-pinch target gases and power-flow electrode plasmas. In the 2D sample problem, the plasma drifts without external forces with velocity of 10 cm/µs. Simulations are scaled by plasma density to maintain uniform strides across the plasma and from the plasma to the boundaries. Additionally, the cloud-in-cell technique is used with 400 particles per cell and Δ t = 0.85× the Courant limit. For the linear cloud distribution, the criterion for conserving energy is Δ E/E tot < 0.01 for 50,000 time steps. The grid resolution is determined to crudely be Δx ≲ 3 l s , where l s is the electron collisionless skin depth. For the second-order cloud distribution the criterion is Δ E/E tot < 0.005 yielding Δx ≤ 15 l s . These scalings are functions of the chosen v d , Δ t , particles-per-cell, and number of steps.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2023

Conservation of Helium while Maintaining High System Purity

Recent helium shortages and helium price increases have lead to an increased emphasis being placed on conserving helium. The need to conserve helium must be balanced with need to maintain the high levels of purity necessary to prevent operational problems caused by contamination. Helium losses and contamination control are especially important for test stands that have cryogenic distribution systems operating continuously with frequent changeover of cryogenic temperature components that are being tested. This paper describes a mathematical model to estimate the quantity of helium lost and the purity of the helium after the pump and backfill procedure is complete. The process to determine the optimal time during pump down to cut off pumping and start backfilling is described. There is a tradeoff between trying to achieve the lowest possible pressure during pumping and the quantity of air leaking into the volume while pumping is occurring. An additional benefit of careful sel ection of pump and backfill parameters in conjunction with real-time pressure monitoring can reduce the labor and time required to complete a successful pump and backfill procedure. This paper is intended to be a tool for engineers to review their pump and backfill procedures and measured data to optimize helium losses, system purity, and labor required.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2023

Energy conserving quadrature based dimensionality reduction for nonlinear hydrodynamics problems

Projection based dimensionality reduction is used to approximate the full discretiza tion of a PDE problem in order to reduce the cost of its numerical simulation while staying faithful to the full dynamics. For nonlinear problems, hyperreduction methods are additionally needed to remove the dependence of the nonlinear terms on the full problem’s size. In this project, we develop an energy conserving hyperreduction method and apply it to Eulerian-Lagrangian hydrodynamics problems, demonstrating that the reduced model successfully accelerates the numerical simulations while conserving the problem’s total energy with high accuracy.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2022

Stable binding to phosphatidylserine-containing membranes requires conserved arginine residues in tandem C domains of blood coagulation factor VIII

At sites of vascular damage, factor VIII (fVIII) is proteolytically activated by thrombin and binds to activated platelet surfaces with activated factor IX (fIXa) to form the intrinsic “tenase” complex. Previous structural and mutational studies of fVIII have identified the C1 and C2 domains in binding to negatively charged membrane surfaces through β-hairpin loops with solvent-exposed hydrophobic residues and a ring of positively charged basic residues. Several hemophilia A-associated mutations within the C domains are suggested to disrupt lipid binding, preventing formation of the intrinsic tenase complex. In this study, we devised a novel platform for generating recombinant C1, C2, and C1C2 domain constructs and performed mutagenesis of several charged residues proximal to the putative membrane binding region of each C domain. Binding measurements between phosphatidylserine (PS)-containing lipid membrane surfaces and fVIII C domains demonstrated an ionic strength dependence on membrane binding affinity. Mutations to basic residues adjacent to the surface-exposed hydrophobic regions of C1 and C2 differentially disrupted membrane binding, with abrogation of binding occurring for mutations to conserved arginine residues in the C1 (R2163) and C2 (R2320) domains. Lastly, we determined the X-ray crystal structure of the porcine fVIII C2 domain bound to o-phospho-L-serine, the polar headgroup of PS, which binds to a basic cleft and makes charge-charge contact with R2320. We conclude that basic clefts in the fVIII C domains bind to PS-containing membranes through conserved arginine residues via a C domain modularity, where each C domain possesses modest electrostatic-dependent affinity and tandem C domains are required for high affinity binding.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Energy-conserving physics for nonhydrostatic dynamics in mass coordinate models

Abstract. Motivated by reducing errors in the energy budget related to enthalpy fluxes within the Energy Exascale Earth System Model (E3SM), we study several physics–dynamics coupling approaches. Using idealized physics, a moist rising bubble test case, and the E3SM's nonhydrostatic dynamical core, we consider unapproximated and approximated thermodynamics applied at constant pressure or constant volume. With the standard dynamics and physics time-split implementation, we describe how the constant-pressure and constant-volume approaches use different mechanisms to transform physics tendencies into dynamical motion and show that only the constant-volume approach is consistent with the underlying equations. Using time step convergence studies, we show that the two approaches both converge but to slightly different solutions. We reproduce the large inconsistencies between the energy flux internal to the model and the energy flux of precipitation when using approximate thermodynamics, which can only be removed by considering variable latent heats, both when computing the latent heating from phase change and when applying this heating to update the temperature. Finally, we show that in the nonhydrostatic case, for physics applied at constant pressure, the general relation that enthalpy is locally conserved no longer holds. In this case, the conserved quantity is enthalpy plus an additional term proportional to the difference between hydrostatic pressure and full pressure.

58 GEOSCIENCES↗
NASA NTRS1972

Theorems on symmetrics and flux conservation in radiative transfer using the matrix operator theory

The matrix operator approach to radiative transfer is shown to be a very powerful technique in establishing symmetry relations for multiple scattering in inhomogeneous atmospheres. Symmetries are derived for the reflection and transmission operators using only the symmetry of the phase function. These results will mean large savings in computer time and storage for performing calculations for realistic planetary atmospheres using this method. The results have also been extended to establish a condition on the reflection matrix of a boundary in order to preserve reciprocity. Finally energy conservation is rigorously proven for conservative scattering in inhomogeneous atmospheres.

Kattawar, G. W.↗
NASA NTRS1971

A systematic exposition of the conservation equations for blast waves.

In order to provide a rational background for the analysis of experimental observations of blast wave phenomena, the conservation equations governing their nonsteady flow field are formulated in a general manner, without the usual restrictions imposed by an equation of state, and with proper account taken, by means of source terms, of other effects which, besides the inertial terms that conventionally dominate these equations, can affect the flow. Taking advantage of the fact that a blast wave can be generally considered as a spatially one-dimensional flow field whose nonsteady behavior can be regarded, consequently, as a function of just two independent variables, two generalized blast wave coordinates are introduced, one associated with the front of the blast wave and the other with its flow field. The conservation equations are accordingly transformed into this coordinate system, acquiring thereby a comprehensive character, in that they refer then to any frame of reference, being applicable, in particular, to problems involving either space or time profiles of the gas-dynamic parameters in the Eulerian system, or time profiles in the Lagrangian system.

Oppenheim, A. K.↗
NASA NTRS1972

Gauge invariance, current conservation, and GIAO's

The well known relationship between gauge invariance and current conservation is exhibited within the usual quantum mechanical formalism. It is then shown that the use of gauge-invariant atomic orbitals (GIAO) does not necessarily lead to the expected current conservation. The reason is found to lie in the constrained nature of the gauge invariance which is provided by the use of GIAO's. It is concluded that this invariance is, of itself, no argument in favor of their use.

Epstein, S. T.↗
NASA NTRS1972

The entropy rate admissibility criterion for solution of hyperbolic conservation laws

The entropy rate admissibility criterion for solutions of hyperbolic conservation laws is numerically analyzed. The following admissibility criterion for solutions of hyperbolic conservation laws is proposed: a weak solution is admissible if the total entropy decays with the highest possible rate. The equivalence of this criterion and viscosity criterion is established for the single equation and the system of equations of one dimensional nonlinear elasticity.

Dafermos, C. M.↗
NASA NTRS1973

Theorems on symmetries and flux conservation in radiative transfer using the matrix operator theory.

The matrix operator approach to radiative transfer is shown to be a very powerful technique in establishing symmetry relations for multiple scattering in inhomogeneous atmospheres. Symmetries are derived for the reflection and transmission operators using only the symmetry of the phase function. These results will mean large savings in computer time and storage for performing calculations for realistic planetary atmospheres using this method. The results have also been extended to establish a condition on the reflection matrix of a boundary in order to preserve reciprocity. Finally energy conservation is rigorously proven for conservative scattering in inhomogeneous atmospheres.

Kattawar, G. W.↗