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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 811 records · Page 45
All sourcesNASA NTRSDOE OSTI
DOE OSTI2018

Genome-wide analysis of cytochrome P450s of Trichoderma spp.: annotation and evolutionary relationships

Background Cytochrome P450s form an important group of enzymes involved in xenobiotics degradation and metabolism, both primary and secondary. These enzymes are also useful in industry as biotechnological tools for bioconversion and a few are reported to be involved in pathogenicity. Trichoderma spp. are widely used in industry and agriculture and are known for their biosynthetic potential of a large number of secondary metabolites. For realising the full biosynthetic potential of an organism, it is important to do a genome-wide annotation and cataloguing of these enzymes. Results Here, we have studied the genomes of seven species (T. asperellum, T. atroviride, T. citrinoviride, T. longibrachiatum, T. reesei , T. harzianum and T. virens) and identified a total of 477 cytochrome P450s. We present here the classification, evolution and structure as well as predicted function of these proteins. This study would pave the way for functional characterization of these groups of enzymes and will also help in realization of their full economic potential. Conclusion Our CYPome annotation and evolutionary studies of the seven Trichoderma species now provides opportunities for exploration of research-driven strategies to select Trichoderma species for various applications especially in relation to secondary metabolism and degradation of environmental pollutants.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

Technical Report: Benchmarking for Quasispecies Abundance Inference with Confidence Intervals from Metagenomic Sequence Data

The software application “MetaQuant” was developed by our group at Lawrence Livermore National Laboratory (LLNL). It is designed to profile microbial populations in a sample using data from whole-genome shotgun (WGS) metagenomic DNA sequencing. Several other metagenomic profiling applications have been described in the literature. We ran a series of benchmark tests to compare the performance of MetaQuant against that of a few existing profiling tools, using real and simulated sequence datasets. This report describes our benchmarking procedure and results.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Modeling Mesoscale Processes of Scalable Synthesis (Final Report)

The main objective of the center is to develop tools that can help for the understanding of equilibrium and non-equilibrium properties of nanoparticles in aqueous electrolytes. To achieve this goal, we need to develop new computational methodologies that can integrate molecular level description such as the electronic structure analysis to mesoscale description such as generalized hydrodynamics. The challenge is to develop systematic coarse graining techniques that can adaptively choose the level of description needed for the particular task. For example, if bonding breaking is involved, then one should use appropriate models from quantum mechanics to accurately model the time scale and molecular mechanism for the breaking process. However, to model transport process or the process of self-assembly, much less detailed models can be used. There are two main components to this task. One is to develop accurate models that bridge different levels of description. The classical example is the QM/MM model that bridges quantum mechanics and molecular mechanics for studying chemical reactions of large molecules. This work was awarded the Nobel prize this year. For our purpose, we also need to develop methods that bridge molecular and continuum levels of description. Another main task is to develop systematic coarse-graining methods that can give rise to accurate mesoscale and macroscale models, starting from more detailed models at the atomic or molecular scale. None of these ideas are new. By now they have been fashionable topics for quite some time. But neither problem is satisfactorily resolved. The main problem is that uncontrolled approximations are used. As a result, we have very little idea about the validity and accuracy of these models. The main purpose of the center is to exploit the Mori-Zwanzig formalism to achieve the goals stated above. The Mori-Zwanzig formalism is a general tool for eliminating degrees of freedom from existing models. What is attractive about this formalism is its generality. The flip side is that it is also somewhat of a tautology. In order to make it a practical tool, one has to make approximations and this is where the trouble comes. Instead of focusing on Mori-Zwanzig formalism, the PI proposes to study the closely related renormalization group formalism (RG). Like Mori-Zwanzig, RG is a general strategy for eliminating small scale degrees of freedom in a model. Unlike Mori-Zwanzig, RG has the advantage that at least for some problems, one can write a PDE (partial differential equation) type of model for the exact RG flow, without any approximation. This gives us a solid starting point for discussing and analyzing approximations. The PI studied approximate RG flows for turbulent diffusion and related problems. However, extending it to more practical problems proved to be hard. The second line that the PI has pursued is to develop special numerical algorithms for studying particularly important events for dynamics processes in meso-scale systems. The PI succeeded in doing so for the problem of understanding phase transition in metallic systems.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2019

Development of Critical Experiments to Provide Validation Data for Multiphysics Coupling Methods (Final Report)

Computational simulation has become one of the most important tools in the modern toolbox for nuclear reactor design. Reactor simulations, like the reactors themselves, involve multiple physical processes including neutronics, fluid flow and heat transfer (thermal-hydraulics), thermo-mechanics, fuel behavior, chemistry, and balance of plant. Each process can affect the behavior of the others, and advanced computational tools have been developed that couple separate physics models together to simulate the feedback effects. The objective of this work is to generate experimental data to support the validation of multi-physics reactor codes. It specifically targets the SHARP toolset from the NEAMS Reactor Product Line, but it is intended to be useful in any set of coded that couples thermal-hydraulics with neutronics simulations. The project takes advantage of the inherent flexibility of the RPI Reactor Critical Facility (RCF), a low power open-pool research reactor. The standard configuration of the RCF is used to explore the effects of moderator temperature on neutronic behavior and reactivity. Because the low power of the reactor generates no appreciable temperature change in the moderator, the moderator temperature is artificially changed with two 18 kW electric immersion heaters. The temperature feedback effects can be observed by recording the change in the reactor power as the reactor goes from a supercritical state, to critical, to a subcritical state. To expand the temperature range and temperature rate of change that can be investigated, an experimental apparatus consisting of a heated water loop was designed and installed in the RCF. In this setup, water from a heated reservoir tank is pumped through a pipe placed through the center of the reactor core. The water in the reservoir can be heated to around 70 °C and pumped through the system. The pump has a variable flow rate and electronic control, so a number of scenarios can be developed. A slug of water can be pushed through the system to generate a reasonably fast change in reactivity. The pump speed can be increased or decreased over the course of a measurement, or even oscillated at different periods, to observe the response of the reactor. To complement the experimental data generated by the RCF, a set of computational models have been developed. They are intended to illustrate the usefulness of the experimental data generated in validating coupled multi-physics simulations. A model previously constructed in MCNP has been used in conjunction with safety analysis at the RCF for many years and was modified to support the design of the heated water loop experiment. This model was translated into Serpent 2, a similar Monte Carlo code, which provided the added advantage of being able to produce collapsed cross-section data files for use in the deterministic neutron transport codes that are part of the SHARP toolset. A complete reconstruction of the RCF model, both with and without the heated fluid loop experiment, were necessary for use with the SHARP codes, PROTEUS (neutronics) and Nek5000 (thermal hydraulics), as these require an unstructured mesh format to operate. The computational requirements for fully coupled three dimensional simulations are significant, and challenges to full implementation and comparison with RCF experiments remain. A wide variety of experiments have been conducted for eventual benchmarking and validation of multi-physics reactor codes. A complete database of detailed time- and temperature-dependent measurements have been generated and stored. Several examples of the experimental results are presented here, with refinement and analysis of experiments ongoing. While these experiments still only address a finite range of operating conditions, in particular being limited to water in the sub-boiling regime, they represent a unique (to date) look at the feedback between temperature and neutronic behavior suited for validation of the coupling routines in multi-physics codes. It is hoped that these will be the foundation of future benchmarks that will provide confidence in the tools that will be used to develop the next generation of nuclear reactor systems.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2019

Particle/Ray Interaction Simulation Manager (PRISM) Assessment Report

The Particle/Ray Interaction Simulation Manager (PRISM) is a software tool developed by Triple Ring Technologies (TRT), http://www.tripleringtech.com/, under a Small Business Innovation Research Award from the Department of Homeland Security (DHS) to investigate the utility of simulations in X-ray-based explosive detection systems. The PRISM tool is intended to provide a standardized and intuitive user interface to control and configure realistic simulations of X-ray imaging systems. It includes a command-line interface that enables the user to configure simulated X-ray radiography and computed tomography (CT) systems. It allows the import of computer-aided design (CAD) models of objects and it supports Monte Carlo simulation engines such as GEANT4. PRISM is designed to simulate realistic X-ray projection images including scatter, noise, and various detector effects such as quantum efficiency, lag, and veiling glare. At the request of DHS, the authors assessed PRISM’s capabilities to simulate data generated by a Micro-CT test-bed system (MCT-TB) housed at the Lawrence Livermore National Laboratory (LLNL). This document describes the results of that assessment.

42 ENGINEERING↗
DOE OSTI2020

Harnessing the power of ab initio calculations, distributed computing and machine learning to efficiently locate extreme molecules for use in carbon-based solar cells (Final Technical Report)

The use of high-throughput virtual screening (HTVS) tools is a powerful tool to expedite the materials discovery of commercially relevant materials. In previous years, our group has developed a molecular discovery platform to generate libraries in order to obtain suitable candidates for different applications, starting from the Harvard Clean Energy Project. This platform is suitable to test in-silico on traditional supercomputing clusters and shared resources, for example, in the IBM World Community Grid. In this project, we used the molecular discovery platform to create and screen a library of candidates of organic photovoltaic (OPVs) molecules. Based on a set of candidates created with combinations of molecular moieties, we were able to filter, by conformation stability, the energy of electronic orbitals and approximated power conversion efficiencies (PCE). To improve the predictions of orbital energies calculated and the PCEs, we used Gaussian Process regression and two sets of molecules. These sets correspond to electronic structure calculations of a higher level of theory and experimental PCE values, respectively. Finally, we selected a subset of the best candidates (molecules with a PCE higher than 10%) to understand its absorbance properties with TD-DFT. This project has demonstrated the capabilities of our molecular discovery platform for HTVS. Finally, machine learning can help us to introduce more complex effects included in bulk conditions and computational intensive calculations on models.

14 SOLAR ENERGY↗
DOE OSTI2020

PIPER: Performance Insight for Programmers and Exascale Runtimes (Final Technical Report)

This project concentrated on the development of novel performance tools and analysis techniques for large scale parallel systems and applications, eventually targeting exascale platforms. Activities conducted included work to novel root cause detection approaches and an auto-tuning framework for parallel systems. The work has led to several software solutions, which are available as open source.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Quantum Quench Dynamics–Crossover Phenomena in Nonequilibrium Correlated Quantum Systems (Final Technical Report)

In this project we have developed analytical and numerical tools to study the interplay between interactions, dimensionality, fluctuations and disorder in quantum impurity systems. We have studied the transient dynamics following a quench, i.e. the sudden change in a control variable of the model Hamiltonian, which offers a unique way to examine the system’s spatial, temporal and energetic structure. Specifically, we have investigated how crossover scales, i.e. given by Kondo couplings, are affected by disorder. We have addressed a wide range of phenomena, such as the effects of static disorder on dynamical screening of magnetic impurities, and the influence of a fully time-fluctuating bath environment on the dephasing of system qubits. We have found that many of these systems exhibit fascinating counterintuitive behavior, such as e.g. the possibility of asymptotic unitary time evolution in specifically conditioned system-bath Hamiltonians. From a technical point of view, we have developed a supersymmetric formalism to analyze scaling functions of disordered quantum impurity spin chains, we generalized the strong-coupling real-space renormalization group method to probe the quench dynamics of higher-dimensional quantum impurity systems, and we devised a master equation approach that included the effects of a fully fluctuating environment. This way, we have addressed a very broad spectrum of transient phenomena in quantum impurity systems, with disorder ranging from the quenched to the annealed limit.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2020

Multizone Residential HVAC Modeling

This report will evaluate several building physics modeling tools to determine which are best suited for developing next-generation zoning technology. These modeling tools will be evaluated for their ability to predict room-level thermal loads, HVAC system operation, temperature and comfort predictions, and scalability. Any gaps in the existing tools will be identified and a path forward will be discussed.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2021

Bias Characterization, Vertical Interpolation, and Horizontal Interpolation for Distributed Wind Siting Using Mesoscale Wind Resource Estimates

Much like their counterparts in utility-scale wind energy, developers of industrial, small-scale and distributed wind turbine deployments need to understand and accurately characterize the wind resource to properly assess the power generation and financial ramifications during siting and planning. National Renewable Energy Laboratory’s WIND (Wind Integration National Dataset) Toolkit (WTK) provides a best-in-class wind resource dataset generated using the Weather Research and Forecasting (WRF) model. This dataset includes parameters such as the wind speed, wind direction, and temperature at various heights, plus atmospheric stability near the surface. This data is available at 2-km spatial resolution and five-minute temporal resolution across 7 years, from 2007 to 2013 through a publicly accessible API interface. The Tools Assessing Performance (TAP) project seeks to extend this dataset to allow long term resource estimates and leverage it to better equip distributed wind equipment manufacturers, owner-operators, and installation professionals with better tools for practical siting applications. In this report, we present the results from our investigation within the TAP project focused on characterization of bias in WTK-based wind speed estimates and evaluation of vertical and horizontal interpolation techniques. We discuss the tradeoffs between different techniques and their combinations, as well as describe the lower bounds we determine for the studied validation errors. While the specific estimates we present are specific to WTK and the validation dataset we have chosen for this investigation (NREL's Wind Resource Meteorological Database), the overall analysis and the studied techniques are general enough to be applied to a broader set of wind datasets, both simulation-based and observational.

17 WIND ENERGY↗
DOE OSTI2021

Calculated Gamma Output from a 6-kilogram Sphere of Neptunium

We previously modeled a 6 kg neptunium sphere with pyDMTK 2.0.0b, a python-based intrinsic radiation (INRAD) modeling tool, on the MOONLIGHT machine. Here we report results from version 2.0.1b on SNOW, another TriLab Linux Capacity Cluster (TLCC) resource on the Laboratory’s Turquoise network. We also present gamma output from MCNP 6.2.0 in terms of discrete line strengths, full gamma spectra, and dose rate maps for visualization. Results from both models agree with recent gamma measurements.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2021

Characterization and Optimization of Building Blocks for Specialized Computing Platforms

As noise limits the performance of quantum processors, the ability to characterize this noise and develop methods to overcome it is essential for the future of quantum computing. In this report, we develop a complete set of tools for improving quantum processor performance at the application level, including low-level physical models of quantum gates, a numerically efficient method of producing process matrices that span a wide range of model parameters, and full-channel quantum simulations. We then provide a few examples of how to use these tools to study the effects of noise on quantum circuits.

42 ENGINEERING↗
DOE OSTI2022

NEAMS Advanced Reactor Model Contributions to the NRIC Virtual Test Bed

The U.S. Department of Energy (DOE) Office of Nuclear Energy’s Advanced Modeling and Simulation (NEAMS) Program develops models of advanced reactor phenomena to demonstrate code applicability to challenging physics problems, drive code development through user assessment, and perform code verification and validation. Meanwhile, the U.S. DOE’s National Reactor Innovation Center (NRIC) hosts an open-source website and associated GitHub repository called the Virtual Test Bed (VTB) on which computational models for advanced reactors are documented and shared with the reactor community. Several NEAMS advanced reactor models (including input files, documentation, and discussion of results) have recently been contributed to the NRIC VTB. The open sharing of these models benefits the reactor community by providing “best practice” examples using NEAMS tools for advanced reactor physics problems. This report summarizes and provides links to these new models, which include modeling phenomena important to liquid metal cooled fast reactors, molten salt reactors, high temperature gas-cooled reactors, and microreactors.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗
DOE OSTI2023

Electron Coherence and Interactions in Nanostructures (Final Report)

The goal of this program was to develop the tools of quantum many-body theory suitable for studying electronic properties of nanostructures, to apply them to recent or contemporaneous experiments, and to chart the directions of future development in the physics of low-dimensional quantum materials and devices. Over the duration of this Program, we introduced and developed the notion of Nonlinear Luttinger liquid, which is viewed by peers as one of a few major developments in the theory of one-dimensional quantum liquids since the notion of Tomonaga-Luttinger liquids was introduced by Tomonaga in 1950. Later, motivated by the raise of the ideas of topological quantum computing, we contributed to the theory of structure and dynamics of Majorana states in superconducting devices. In parallel, we worked to understand the sources of decoherence of experimentally-implemented superconducting qubits. Over time, we developed a comprehensive theory of the qubit relaxation by quasiparticles. This theory is widely used in the interpretation of experiments and in developing practical ways to mitigate the qubit decoherence.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2020

"Russians in the Grid" Enrichment Process

Threat intelligence sources are numerous, and the quality of their intelligence is equally variable. The need for quality, actionable, and shareable intelligence is becoming increasingly important as cyber-threats continue to increase. In this paper, we describe the process we used to enrich U.S. CERT’s Technical Alert entitled “Russian Government Cyber-Activity Targeting Energy and Other Critical Infrastructure Sectors,” affectionately referred to as “Russians In the Grid,” from a series of separate but related reports to a final, actionable, unified Structured Threat Information Expression (STIX) v2 representation of the report. In the process, we detail the tools and procedures we used, some of which are automated and others highly manual. We identify some of the limitations of current STIX enrichment tools and techniques, and propose enhancements to allow for more effective enrichment and better overall threat intelligence to be used for more effective threat data-sharing, as well as machine learning-based predictive threat work being conducted at Idaho National Laboratory.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗
DOE OSTI2022

Graph-theoretical KMC Framework for Calculating Effective Diffusivity in TPBAR Components: Effective Diffusivity of Tritium in α-Zr Grain Boundaries

We report the development of a computer simulation tool based on the Graph-theoretical kinetic Monte Carlo (GT-KMC) approach that can be used to simulate diffusion and derive effective diffusivity of species in complex structures of TPBAR components. The GT-KMC framework was implemented in AKSOME, an on-lattice self-learning kinetic Monte Carlo tool developed at PNNL and was previously used to study solute diffusion in metal alloys. This newly developed tool will be helpful in simulating atom diffusion and extracting their effective diffusivities in grain boundaries and interfaces in various TPBAR components. Once benchmarked, the tool will be used to simulate the diffusion of tritium (hydrogen) along grain boundaries in α-Zr using the activation energy barrier data previously obtained from Density Functional Theory calculations.

36 MATERIALS SCIENCE↗
DOE OSTI2023

Department of Energy’s Atmospheric System Research (ASR) Program’s Workshop on the Future of Atmospheric Large Eddy Simulation (LES): Workshop Report

Large-eddy simulation (LES) is used as a tool to understand physical processes such as turbulence, aerosols, clouds, precipitation, radiation, the interactions among all these, and their interactions with the underlying surface. Over the next 10 years, LES will drive fundamental progress in open scientific questions in these areas as LES is increasingly used to gain understanding of complex interacting physical processes involving atmospheric turbulence. This growth will be driven both by scientific demand and the expansion of computational resources needed to conduct LES, and the form that the growth takes will largely be determined by how computational resources are leveraged for scientific gain. In particular, we suggest that computational resources are likely to be leveraged in two separate but not necessarily distinct ways. On one hand, growth in computational resources will allow LES to be made more routine, that is, performed more frequently, while on the other hand, the computational expense (measured in total floating point operations) afforded to individual LES will expand dramatically, allowing simulations to increase in both domain size and resolution as well as physical detail. Current U.S. Department of Energy (DOE) projects such as LES ARM Symbiotic Simulation and Observation Activity (LASSO) are leading the way in conducting routine LES, building large, public databases that are accessible for data science, sensitivity studies, and training for machine learning. LES will also become more routine as it becomes more accessible for individual researchers to address their scientific questions of interest. Scientific questions addressed by LES over the next 10 years are likely to include cloud organization and aggregation; aerosol cloud interactions and atmospheric chemistry (including geo-engineering); urban-scale LES; atmospheric extreme events, ranging from small-scale severe weather to wildfires; and ocean-wave-atmosphere interactions. Further LES-related research will likely grow significantly in areas related to societal impact studies of air quality and extreme weather events, applications to renewable energy forecasting and resource assessment, and aid in decision-making processes. The growth in the use of LES in atmospheric science research will drive the need for better physical process representations (e.g., cloud aerosol microphysics, radiation, and atmospheric chemistry) at the scales resolved by LES. To date, many of the process representations used by LES have been taken directly from coarser-resolution models. Promising methods for LES process representations include superdroplet and quadrature methods for microphysics, 3D approaches for radiation, and better representation of chemistry and aerosol processes. At LES resolution, land-atmosphere interactions for complex terrains, land cover/types, biogeochemistry, and plant canopy models are needed as an improvement beyond traditional and widely used Monin-Obuhkov similarity theory.

54 ENVIRONMENTAL SCIENCES↗