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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 541 records · Page 30
All sourcesNASA NTRSDOE OSTI
NASA NTRSDate not supplied

The Use of Spire Radio Occultation Measurements in the GEOS Atmospheric Data Assimilation System

As part of the pilot segment of the NASA Commercial SmallSat Data Acquisition (CSDA) Program, the Global Modeling and Assimilation Office (GMAO) evaluated products acquired from Spire Global, Inc. in the context of the Goddard Earth Observing System (GEOS) Atmospheric Data Assimilation System (ADAS). Specifically, the GMAO assimilated the bending angle profiles derived by Spire from Global Navigation Satellite System (GNSS) radio occultation (RO) measurements of the atmosphere made by their Stratos instruments onboard their constellation of Lemur small satellites. The bending angle observations were used to further constrain the thermodynamic fields in the context of the global observing system typically assimilated within GEOS.

Will Mccarty↗
NASA NTRS2021

Comprehensive Laboratory Measurements Resolving the LMM Dielectronic Recombination Satellite Lines in Ne-like Fe XVII Ions

We investigated experimentally and theoretically dielectronic recombination (DR) populating doubly excited configurations 3l3l¢ (LMM) in Fe XVII, the strongest channel for soft X-ray line formation in this ubiquitous species. We used two different electron beam ion traps and two complementary measurement schemes for preparing the Fe XVII samples and evaluating their purity, observing negligible contamination effects. This allowed us to diagnose the electron density in both EBITs. We compared our experimental resonant energies and strengths with those of previous independent work at a storage ring as well as those of configuration interaction, multiconfiguration Dirac–Fock calculations, and many-body perturbation theory. This last approach showed outstanding predictive power in the comparison with the combined independent experimental results. From these we also inferred DR rate coefficients, unveiling discrepancies from those compiled in the OPEN-ADAS and AtomDB databases.

Filipe Grilo↗
NASA NTRSDate not supplied

The Impact of Assimilating Large Volumes of GNSS Radio Occultation Observations from Spire’s Commercial Constellation into NASA’s Global Earth Observing System

The upcoming retrospective analysis for the 21st century (R21C) reanalysis product from NASA will include the full dataset of GNSS Radio Occultation (RO) observations collected by Spire with their constellation of smallsats. The Spire RO dataset, which was purchased by NASA for its Commercial Smallsat Data Acquisition (CSDA) archive, has global coverage and includes approximately 6 thousand RO profiles per day during 2019 increasing to nearly 20 thousand in 2022-2023. This more than doubles the volume of RO profiles from all other routinely assimilated RO missions combined during 2023. The increase in the number of RO profiles available is particularly important in the extratropics as the next largest RO constellation, the state-of-the-science Formosa Satellite Mission 7 (FORMOSAT-7)/Constellation Observing System for Meteorology, Ionosphere and Climate (COSMIC-2) mission (hereafter COSMIC-2), is focused on the Tropics and only provides approximately 4 thousand RO profiles per day. The large number of observations in the Spire RO dataset have great potential to improve analyses and forecasts of the Earth’s atmosphere produced by numerical weather prediction systems. Their impact is assessed through numerical experiments using NASA’s Global Earth Observing System (GEOS) Atmospheric Data Assimilation System (ADAS) with and without the observations from the COSMIC-2 mission. The ability of the Spire RO observations to make up for the omission of the RO observations from COSMIC-2 is directly assessed over the tropics and the impact of Spire over the extratropics is compared to that of the available RO missions that sample over this region. Finally, the quality of the Spire RO observations is compared to that of the routinely assimilated RO missions using Forecast Sensitivity-based Observation Impact (FSOI).

Michael J. Murphy, Jr.↗
NASA NTRSDate not supplied

The Impact of Assimilating Large Volumes of GNSS Radio Occultation Observations from Spire’s Commercial Constellation into NASA’s GEOS

The upcoming retrospective analysis for the 21st century (R21C) reanalysis product from NASA will include the full dataset of GNSS Radio Occultation (RO) observations collected by Spire with their constellation of smallsats. The Spire RO dataset, which was purchased by NASA for its Commercial Smallsat Data Acquisition (CSDA) archive, has global coverage and includes approximately 6 thousand RO profiles per day during 2019 increasing to nearly 20 thousand in 2022-2023. This more than doubles the volume of RO profiles from all other routinely assimilated RO missions combined during 2023. The increase in the number of RO profiles available is particularly important in the extratropics as the next largest RO constellation, the state-of-the-science Formosa Satellite Mission 7 (FORMOSAT-7)/Constellation Observing System for Meteorology, Ionosphere and Climate (COSMIC-2) mission (hereafter COSMIC-2), is focused on the Tropics and only provides approximately 4 thousand RO profiles per day. The large number of observations in the Spire RO dataset have great potential to improve analyses and forecasts of the Earth’s atmosphere produced by numerical weather prediction systems. Their impact is assessed through numerical experiments using NASA’s Global Earth Observing System (GEOS) Atmospheric Data Assimilation System (ADAS) with and without the observations from the COSMIC-2 mission. The ability of the Spire RO observations to make up for the omission of the RO observations from COSMIC-2 is directly assessed over the tropics and the impact of Spire over the extratropics is compared to that of the available RO missions that sample over this region. Finally, the quality of the Spire RO observations is compared to that of the routinely assimilated RO missions using Forecast Sensitivity-based Observation Impact (FSOI).

Michael J. Murphy↗
NASA NTRSDate not supplied

The Impact of Assimilating Large Volumes of GNSS Radio Occultation Observations from Spire’s Commercial Constellation into NASA’s GEOS

The upcoming retrospective analysis for the 21st century (R21C) reanalysis product from NASA will include the full dataset of GNSS Radio Occultation (RO) observations collected by Spire with their constellation of smallsats. The Spire RO dataset, which was purchased by NASA for its Commercial Smallsat Data Acquisition (CSDA) archive, has global coverage and increases in number from approximately 6 thousand RO profiles per day during 2019 to approximately 20 thousand in 2022-2023. This more than doubles the volume of RO profiles from all other routinely assimilated RO missions combined during 2022. The increase in the number of RO profiles available is particularly important in the extratropics as the next largest RO constellation, the state-of-the-science Formosa Satellite Mission 7 (FORMOSAT-7)/Constellation Observing System for Meteorology, Ionosphere and Climate (COSMIC-2) mission (hereafter COSMIC-2), is focused on the Tropics and only provides approximately 4 thousand RO profiles per day. The large number of observations in the Spire RO dataset have great potential to improve analyses and forecasts of the Earth’s atmosphere produced by numerical weather prediction systems. Their impact is assessed through numerical experiments using NASA’s Global Earth Observing System (GEOS) Atmospheric Data Assimilation System (ADAS) with and without the observations from the COSMIC-2 mission. The ability of the Spire RO observations to make up for the omission of the RO observations from COSMIC-2 is directly assessed over the tropics and the impact of Spire over the extratropics is compared to that of the available RO missions that sample over this region. Finally, the quality of the Spire RO observations is compared to that of the routinely assimilated RO missions using Forecast Sensitivity-based Observation Impact (FSOI).

Michael J. Murphy↗
DOE OSTI2024

Navigating Urban Mobility: Evaluating Infrastructure Strategies for Enhanced Energy-Efficient Access for Micromobility

Cities and communities continue to expand pedestrian and bicycle infrastructure as part of their sustainable mobility and post-pandemic recovery plans. However, the emergence of micro-mobility (e.g., electric bicycles) has created new challenges for urban transport planning. As the popularity of micro-mobility modes has grown, so have safety concerns due to rising injuries, thus challenging many cities to come up with regulatory measures that enable efficient access while minimizing negative impacts from micro-mobility. Leveraging the Open-Source Tool (Mobility Energy Productivity metric), powered by an open-source dataset (OpenStreetMap), and enhanced through the incorporation of perceived discomfort (level-of-traffic stress), this research study focuses on evaluating the accessibility implications of infrastructure planning and regulatory measures for micro-mobility. Five scenarios pertaining to level of traffic stress, sidewalk access, traffic calming, and bike lane coverage were tested in the Denver-Aurora region in Colorado. Maximum improvements in energy-efficient access are realized when allowing sidewalks for micro-mobility use. Cities and planning agencies could leverage this information to assess sidewalk use policies for micro-mobility, while ensuring pedestrian safety and ADA access. Results indicate that expansion of bicycle lane coverage yields 11% accessibility benefits for micro-mobility compared to implementing traffic calming measures yielding 3% accessibility improvements. Further, it was observed most of the population in the Denver-Aurora region is experiencing lower accessibility in-part due to presence of a high-stress connections in the network. Although not generalizable, the use of open-source data and access calculation methodology, make this analysis reproducible and transferable to other locations.

ADVANCED PROPULSION SYSTEMS↗
DOE OSTI2026

Summertime methane and carbon dioxide emission rates and associated variables from a national‐scale survey of 146 reservoirs in the United States

Reservoirs are globally important sources of greenhouse gases, but the magnitude of their emissions is highly uncertain. Here, we present data for 146 reservoirs from two surveys of reservoir methane and carbon dioxide emissions, one at the regional scale in the midwestern United States and one at the national scale in the United States, plus data from two hand‐picked sites in Washington and Puerto Rico. At all reservoirs, ebullitive and diffusive emissions and basic physicochemistry were measured at 15–55 locations during one 22 to 64‐h period during the summers of 2016–2023, with four reservoirs revisited a second time. Contemporaneous water chemistry measurements were made at one or two locations in each reservoir. The dataset consists of two geospatial files and seven CSV files containing greenhouse gas emissions, water chemistry, morphology, and other relevant data. To date, these data comprise the largest multi‐reservoir emissions dataset assembled using consistent measurement methods.

Beaulieu, Jake J. [US Environmental Protection Age↗
DOE OSTI2020

Supercomputer-Based Ensemble Docking Drug Discovery Pipeline with Application to Covid-19

In this work, we present a supercomputer-driven pipeline for in silico drug discovery using enhanced sampling molecular dynamics (MD) and ensemble docking. Ensemble docking makes use of MD results by docking compound databases into representative protein binding-site conformations, thus taking into account the dynamic properties of the binding sites. We also describe preliminary results obtained for 24 systems involving eight proteins of the proteome of SARS-CoV-2. The MD involves temperature replica exchange enhanced sampling, making use of massively parallel supercomputing to quickly sample the configurational space of protein drug targets. Using the Summit supercomputer at the Oak Ridge National Laboratory, more than 1 ms of enhanced sampling MD can be generated per day. We have ensemble docked repurposing databases to 10 configurations of each of the 24 SARS-CoV-2 systems using AutoDock Vina. Comparison to experiment demonstrates remarkably high hit rates for the top scoring tranches of compounds identified by our ensemble approach. We also demonstrate that, using Autodock-GPU on Summit, it is possible to perform exhaustive docking of one billion compounds in under 24 h. Finally, we discuss preliminary results and planned improvements to the pipeline, including the use of quantum mechanical (QM), machine learning, and artificial intelligence (AI) methods to cluster MD trajectories and rescore docking poses.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2018

High-Performance Molecular Dynamics Simulation for Biological and Materials Sciences: Challenges of Performance Portability, Dallas, TX, November 2018.

Highly-optimized parallel molecular dynamics programs have allowed researchers to achieve ground-breaking results in biological and materials sciences. This type of performance has come at the expense of portability: a significant effort is required for performance optimization on each new architecture. Using a metric that emphasizes speedup, we assess key accelerating programming components of four different best-performing molecular dynamics programs - GROMACS, NAMD, LAMMPS and CP2K-- each having a particular scope of application, for contribution to performance and for portability. We use builds with and without these components, tested on HPC systems. We also analyze the code-bases to determine compliance with portability recommendations. We find that for all four programs, the contributions of the non-portable components to speed are essential to the programs' performances; without them we see a reduction in time-to-solution of a magnitude that is insufferable to domain scientists. This characterizes the performance efficiency that must be approached for good performance portability on a programmatic level, suggesting solutions to this difficult problem, which should come from developers, industry and funding institutions, and possibly new research in programming languages.

Computer Science↗
DOE OSTI2019

Using Compiler Directives for Performance Portability in Scientific Computing: Kernels from Molecular Simulation

Achieving performance portability for high-performance computing (HPC) applications in scientific fields has become an increasingly important initiative due to large differences in emerging supercomputer architectures. Here we test some key kernels from molecular dynamics (MD) to determine whether the use of the OpenACC directive-based programming model when applied to these kernels can result in performance within an acceptable range for these types of programs in the HPC setting. We find that for easily parallelizable kernels, performance on the GPU remains within this range. On the CPU, OpenACC-parallelized pairwise distance kernels would not meet the performance standards required, when using AMD Opteron “Interlagos” processors, but with IBM Power 9 processors, performance remains within an acceptable range for small batch sizes. These kernels provide a test for achieving performance portability with compiler directives for problems with memory-intensive components as are often found in scientific applications.

Sedova, Ada↗
DOE OSTI2019

Porting Adaptive Ensemble Molecular Dynamics Workflows to the Summit Supercomputer

Molecular dynamics (MD) simulations must take very small (femtosecond) integration steps in simulation-time to avoid numerical errors. Efficient use of parallel programming models and accelerators in state-of-the art MD programs now is pushing Moore’s limit for time-per-MD step. As a result, directly simulating timescales beyond milliseconds will not be attainable directly, even at exascale. However, concepts from statistical physics can be used to combine many parallel simulations to provide information about longer timescales and to adequately sample the simulation space, while preserving details about the dynamics of the system. Implementing such an approach requires a workflow program that allows adaptable steering of task assignments based on extensive statistical analysis of intermediate results. Here we report the implementation of such an adaptable workflow program to drive simulations on the Summit IBM Power System AC922, a pre-exascale supercomputer at the Oak Ridge Leadership Computing Facility (OLCF). We compare to experiences on Titan, Summit’s predecessor, report the performance of the workflow and its components, and describe the porting process. We find that using a workflow program managed by a Mongo database can provide the fault tolerance, scalable performance, task dispatch rate, and reconfigurability required for robust and portable implementation of ensemble simulations such as are used in enhanced-sampling molecular dynamics. This type of workflow generator can also be used to provide adaptive steering of ensemble simulations for other applications in addition to MD.

Ossyra, John R.↗
DOE OSTI2019

Highly interactive, steered scientific workflows on HPC systems: optimizing design solutions

Scientific workflows are becoming increasingly important in high performance computing (HPC) settings, as the feasibility and appeal of many simultaneous heterogeneous tasks increases with increasing hardware capabilities. Currently no HPC-based workflow platform supports a dynamically adaptable workflow with interactive steering and analysis at run-time. Furthermore, for most workflow programs, compute resources are fixed for a given instance, resulting in a possible waste of expensive allocation resources when tasks are spawned and killed. Here we describe the design and testing of a run-time-interactive, adaptable, steered workflow tool capable of executing thousands of parallel tasks without an MPI programming model, using a database management system to facilitate task management through multiple live connections. We find that on the Oak Ridge Leadership Computing Facility pre-exascale Summit supercomputer it is possible to launch and interactively steer workflows with thousands of simultaneous tasks with negligible latency. For the case of particle simulation and analysis tasks that run for minutes to hours, this paradigm offers the prospect of a robust and efficient means to perform simulation-space exploration with on-the-fly analysis and adaptation.

Ossyra, John R↗
DOE OSTI2025

Robustness of Deep Learning Classification to Adversarial Input on GPUs: Asynchronous Parallel Accumulation Is a Source of Vulnerability

The ability of machine learning (ML) classification models to resist small, targeted input perturbations—known as adversarial attacks—is a key measure of their safety and reliability. We show that floating-point non associativity (FPNA) coupled with asynchronous parallel programming on GPUs is sufficient to result in misclassification, without any perturbation to the input. Additionally, we show that this misclassification is particularly significant for inputs close to the decision boundary and that standard adversarial robustness results may be overestimated up to 4.6 when not considering machine-level details. We first study a linear classifier, before focusing on standard Graph Neural Network (GNN) architectures and datasets used in robustness assessments. We develop a novel black-box attack using Bayesian optimization to discover external workloads that can change the instruction scheduling which bias the output of reductions on GPUs and reliably lead to misclassification. Motivated by these results, we present a new learnable permutation (LP) gradient-based approach to learning floating-point operation orderings that lead to misclassifications. The LP approach provides a worst-case estimate in a computationally efficient manner, avoiding the need to run identical experiments tens of thousands of times over a potentially large set of possible GPU states or architectures. Finally, using instrumentation-based testing, we investigate parallel reduction ordering across different GPU architectures under external background workloads, when utilizing multi-GPU virtualization, and when applying power capping. Our results demonstrate that parallel reduction ordering varies significantly across architectures under the first two conditions, substantially increasing the search space required to fully test the effects of this parallel scheduler-based vulnerability. These results and the methods developed here can help to include machine-level considerations into adversarial robustness assessments, which can make a difference in safety and mission critical applications.

Shanmugavelu, Sanjif [Maxeler Technologies, a Groq↗
DOE OSTI2025

Identification and characterization of substrate- and product-selective nylon hydrolases

Enzymes can rapidly and selectively hydrolyze diverse natural and anthropogenic polymers, but few have been shown to hydrolyze synthetic polyamides. Here, in this work, we synthesized and characterized a panel of 95 enzymes from the N-terminal nucleophile hydrolase superfamily with 30%–50% pairwise amino acid identity. We found that nearly 40% of the enzymes had substantial nylon hydrolase activity, but there was no relationship between phylogeny and activity, nor any evidence of prior evolutionary selection for nylon hydrolysis. Several newly identified hydrolases showed substrate selectivity, generating up to 20-fold higher product titers with nylon-6,6 versus nylon-6. However, the yield was still less than 1%, necessitating further optimization before potential applications. Finally, we determined the crystal structure and oligomerization state of a nylon-6,6-selective hydrolase to elucidate structural factors that could affect activity and selectivity. These new enzymes provide insights into nylon hydrolase evolution and opportunities for analysis and engineering of improved hydrolases.

nylon↗
DOE OSTI2018

Amplified detection of single base mismatches with the competing-strand assay reveals complex kinetic and thermodynamic behavior of strand displacement at the electrode surface

Detection of single-base mismatches with respect to a probe strand has been a predominant pursuit in electrochemical biosensor efforts, due to links found between single nucleotide polymorphisms (SNPs) and the predisposition to various diseases. We report an osmium tetroxide bipyridine-based, thermally-controlled, competitive-strand electrochemical assay to allow amplified detection of single-base mismatches. Optimally designed competitive-strand displacement and hybridization temperature allows us to distinguish the single-mismatched-target from the fully complementary sequence with unambiguous, highly reproducible, robust signal differences of over 90%. Furthermore, we find a complex interplay between the position of the redox label, variations in strand displacement kinetics due to mismatches incorporated into the competitive strand, and alterations in the melting temperature of DNA duplexes tethered on the gold surface, when probed by square-wave voltammetry. Furthermore, these insights will apply to any surface-tethered DNA-based electrochemical biosensor, and can help with understanding complex phenomena involved in these types of assays.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2021

Gut microbiome associations with outcome following co-infection with porcine reproductive and respiratory syndrome virus (PRRSV) and porcine circovirus type 2 (PCV2) in pigs immunized with a PRRS modified live virus vaccine

Porcine reproductive and respiratory syndrome virus (PRRSV) and porcine circovirus type 2 (PCV2) are two of the most significant pathogens affecting swine. Co-infections are common and result in respiratory disease and reduced weight gain in growing pigs. Although PRRS modified live virus (MLV) vaccines are widely used to decrease PRRS-associated losses, they are generally considered inadequate for disease control. The gut microbiome provides an alternative strategy to enhance vaccine efficacy and improve PRRS control. The objective of this work was to identify gut microbiome characteristics associated with improved outcome in pigs immunized with a PRRS MLV and co-challenged with PRRSV and PCV2b. Twenty-eight days after vaccination and prior to co-challenge, fecal samples were collected from an experimental population of 50 nursery pigs. At 42 days post-challenge, 20 pigs were retrospectively identified as having high or low growth outcomes during the post-challenge period. Gut microbiomes of the two outcome groups were compared using the Lawrence Livermore Microbial Detection Array (LLMDA) and 16S rDNA sequencing. High growth outcomes were associated with several gut microbiome characteristics, such as increased bacterial diversity, increased Bacteroides pectinophilus, decreased Mycoplasmataceae species diversity, higher Firmicutes:Bacteroidetes ratios, increased relative abundance of the phylum Spirochaetes, reduced relative abundance of the family Lachnospiraceae, and increased Lachnospiraceae species C6A11 and P6B14. Overall, this study identifies gut microbiomes associated with improved outcomes in PRRS vaccinated pigs following a polymicrobial respiratory challenge and provides evidence towards the gut microbiome playing a role in PRRS vaccine efficacy.

59 BASIC BIOLOGICAL SCIENCES↗