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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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All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

TreeSAPP: the Tree-based Sensitive and Accurate Phylogenetic Profiler

Microbial communities drive matter and energy transformations integral to global biogeochemical cycles, yet many taxonomic groups facilitating these processes remain poorly represented in biological sequence databases. Due to this missing information, taxonomic assignment of sequences from environmental genomes remains inaccurate. We present the Tree-based Sensitive and Accurate Phylogenetic Profiler (TreeSAPP) software for functionally and taxonomically classifying genes, reactions and pathways from genomes of cultivated and uncultivated microorganisms using reference packages representing coding sequences mediating multiple globally relevant biogeochemical cycles. TreeSAPP uses linear regression of evolutionary distance on taxonomic rank to improve classifications, assigning both closely related and divergent query sequences at the appropriate taxonomic rank. TreeSAPP is able to provide quantitative functional and taxonomic classifications for both assembled and unassembled sequences and files supporting interactive tree of life visualizations.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Bayesian Tensor Decompositions for Scalable Supervised Learning of Scientific Data (Final Report)

In this document we highlight the detailed accomplishments and progress that we have made in this period. This progress seeks to address the three main objectives to provide new algorithms for quantifying uncertainty in low-multilinear-rank models and to leverage them for data analysis. These include: (1) develop probabilistic models for low-multilinear-rank functions; (2) develop a suite of Bayesian learning approaches to learn the probabilistic models from data; (3) apply the techniques on challenging problems arising in DOE-relevant applications.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Effect of Ammonia on the Electrocatalysis of Oxygen Reduction Reaction in Base

We investigated the effect of ammonia on the activity of seven benchmark oxygen reduction reaction (ORR) electrocatalysts, Pt/C, Pd/C, Au/C, Ag/C, commercial Fe–N–C, zeolitic imidazolate framework (ZIF)-based Fe–N–C (Fe-ZIF), and ZIF-based Fe,Co–N–C (Fe,Co-ZIF) in alkaline media and direct ammonia fuel cell (DAFC) relevant conditions using a rotating disk electrode. We found that ammonia exposure causes considerable ORR activity loss for all studied electrocatalysts. Should we rank the electrocatalysts in terms of their ORR activity loss and their irreversible ORR activity loss as the result of exposure to ammonia (from the highest loss to the lowest loss), we get Au/C > Pt/C ≈ Pd/C > Ag/C » commercial Fe–N–C > Fe-ZIF ≈ Fe,Co-ZIF and Pd/C > Au/C > Ag/C > commercial Fe–N–C > Fe-ZIF ≈ Fe,Co-ZIF > Pt/C, respectively. The ammonia oxidation reaction activity and adsorptive properties of the Gerisher-Mauerer reaction intermediates do not govern the trend of the ORR activity loss of Pt/C, Pd/C, Au/C, and Ag/C electrocatalysts. Notably, we found that Pt/C electrocatalyst shows the lowest irreversible ORR activity loss, while Fe-ZIF and Fe,Co-ZIF electrocatalysts show the lowest overall ORR activity loss. Our comprehensive study suggests that Pt-based, Fe-ZIF, and Fe,Co-ZIF electrocatalysts are promising cathode candidates for future DAFCs.

Abbasi, Reza (ORCID:0000000249384151)↗
DOE OSTI2024

A goldilocks computational protocol for inhibitor discovery targeting DNA damage responses including replication-repair functions

While many researchers can design knockdown and knockout methodologies to remove a gene product, this is mainly untrue for new chemical inhibitor designs that empower multifunctional DNA Damage Response (DDR) networks. Here, we present a robust Goldilocks (GL) computational discovery protocol to efficiently innovate inhibitor tools and preclinical drug candidates for cellular and structural biologists without requiring extensive virtual screen (VS) and chemical synthesis expertise. By computationally targeting DDR replication and repair proteins, we exemplify the identification of DDR target sites and compounds to probe cancer biology. Our GL pipeline integrates experimental and predicted structures to efficiently discover leads, allowing early-structure and early-testing (ESET) experiments by many laboratories. By employing an efficient VS protocol to examine protein-protein interfaces (PPIs) and allosteric interactions, we identify ligand binding sites beyond active sites, leveraging in silico advances for molecular docking and modeling to screen PPIs and multiple targets. A diverse 3,174 compound ESET library combines Diamond Light Source DSI-poised, Protein Data Bank fragments, and FDA-approved drugs to span relevant chemotypes and facilitate downstream hit evaluation efficiency for academic laboratories. Two VS per library and multiple ranked ligand binding poses enable target testing for several DDR targets. This GL library and protocol can thus strategically probe multiple DDR network targets and identify readily available compounds for early structural and activity testing to overcome bottlenecks that can limit timely breakthrough drug discoveries. By testing accessible compounds to dissect multi-functional DDRs and suggesting inhibitor mechanisms from initial docking, the GL approach may enable more groups to help accelerate discovery, suggest new sites and compounds for challenging targets including emerging biothreats and advance cancer biology for future precision medicine clinical trials.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Electromagnetic and gravitational interactions from Lagrangian mechanics

Highlights: • Background Maxwell and Einstein fields are universal features of Lagrangian systems. • The Lagrangian function is promoted to a dynamic field. • The Einstein–Maxwell theory is derived from Lagrangian mechanics. Background fields of electromagnetic and gravitational type emerge in the low kinetic energy limit of any regular Lagrangian system and, in particular, in the corresponding limit of any spacetime theory in which the free motion of test particles is described by an unspecified regular Lagrangian. Electromagnetic and gravitational type interactions are therefore a universal feature of low kinetic energy Lagrangian systems. These background interactions can be consistently turned into dynamic Einstein–Maxwell fields by promoting the Lagrangian function to a dynamic scalar field on the tangent bundle of the configuration space. Accordingly, Einstein–Maxwell theory can be deduced from the assumption that the motion of elementary test particles in spacetime is described by Lagrangian mechanics. For higher kinetic energy-type values, identified with the square of the invariant mass of the particle, the Lagrangian induces higher rank interactions that seem however too weak to have been detected in spacetime physics, but which might prove relevant at the Planck scale.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2021

Challenges and opportunities in verification and validation of low temperature plasma simulations and experiments

This paper describes the verification and validation (V&V) framework developed for the stochastic Particle-in-Cell, Direct Simulation Monte Carlo code Aleph. An ideal framework for V&V from the viewpoint of the authors is described where a physics problem is defined, and relevant physics models and parameters to the defined problem are assessed and captured in a Phenomena Identification and Ranking Table (PIRT). Furthermore, numerous V&V examples guided by the PIRT for a simple gas discharge are shown to demonstrate the V&V process applied to a real-world simulation tool with the overall goal to demonstrably increase the confidence in the results for the simulation tool and its predictive capability. Although many examples are provided here to demonstrate elements of the framework, the primary goal of this work is to introduce this framework and not to provide a fully complete implementation, which would be a much longer document. Comparisons and contrasts are made to more usual approaches to V&V, and techniques new to the low-temperature plasma community are introduced. Specific challenges relating to the sufficiency of available data (e.g., cross sections), the limits of ad hoc validation approaches, the additional difficulty of utilizing a stochastic simulation tool, and the extreme cost of formal validation are discussed.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2023

Opportunistic CP violation

In the electroweak sector of the Standard Model, CP violation arises through a very particular interplay between the three quark generations, as described by the Cabibbo-Kobayashi-Maskawa (CKM) mechanism and the single Jarlskog invariant J 4 . Once generalized to the Standard Model Effective Field Theory (SMEFT), this peculiar pattern gets modified by higher-dimensional operators, whose associated Wilson coefficients are usually split into CP-even and odd parts. However, CP violation at dimension four, i.e., at the lowest order in the EFT expansion, blurs this distinction: any Wilson coefficient can interfere with J 4 and mediate CP violation. In this paper, we study such interferences at first order in the SMEFT expansion, $\mathcal{O}(1/Λ^2)$, and we capture their associated parameter space via a set of 1551 linear CP-odd flavor invariants. This construction describes both new, genuinely CP-violating quantities as well as the interference between J 4 and CP-conserving ones. We call this latter possibility opportunistic CP violation. Relying on an appropriate extension of the matrix rank to Taylor expansions, which we dub Taylor rank, we define a procedure to organize the invariants in terms of their magnitude, so as to retain only the relevant ones at a given precision. We explore how this characterization changes when different assumptions are made on the flavor structure of the SMEFT coefficients. Interestingly, some of the CP-odd invariants turn out to be less suppressed than J 4 , even when they capture opportunistic CPV, demonstrating that CP-violation in the SM, at dimension 4, is accidentally small.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2020

A parallel strategy for density functional theory computations on accelerated nodes

Using the Löwdin orthonormalization of tall-skinny matrices as a proxy-app for wavefunction-based Density Functional Theory solvers, we investigate a distributed memory parallel strategy focusing on Graphics Processing Unit (GPU)-accelerated nodes as available on some of the top ranked supercomputers at the present time. Here we present numerical results in the strong limit regime, as it is particularly relevant for First-Principles Molecular Dynamics. We also examine how matrix product-based iterative solvers provide a competitive alternative to dense eigensolvers on GPUs, allowing to push the strong scaling limit of these computations to a larger number of distributed tasks. Our strategy, which relies on replicated Gram matrices and efficient collective communications using the NCCL library, leads to a time-to-solution under 0.5 s for the Löwdin orthonormalization of a tall-skinny matrix of 3000 columns on Summit at Oak Ridge Leadership Facility (OLCF). Given the similarity in computational operations between one iteration of a DFT solver and this proxy-app, this shows the possibility of solving accurately the DFT equations well under a minute for 3000 electronic wave functions, and thus perform First-Principles molecular dynamics of physical systems much larger than traditionally solved on CPU systems.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Use-Inspired, Process-Oriented GCM Selection: Prioritizing Models for Regional Dynamical Downscaling

Dynamical downscaling is a crucial process for providing regional climate information for broad uses, using coarser-resolution global models to drive higher-resolution regional climate simulations. The pool of global climate models (GCMs) providing the fields needed for dynamical downscaling has increased from the previous generations of the Coupled Model Intercomparison Project (CMIP). However, with limited computational resources, the need for prioritizing the GCMs for subsequent downscaling studies remains. GCM selection for dynamical downscaling should focus on evaluating processes relevant for providing boundary conditions to the regional models and be inspired by regional uses such as the response of extremes to changes in the boundary conditions. This leads to the need for metrics representing processes of relevance to diverse stakeholders and subregions of a domain. Procedures to account for metric redundancy and the statistical distinguishability of GCM rankings are required. Further, procedures for selecting realizations from ensembles of top-performing GCM simulations can be used to span the range of climate change signals in multiple ways. As a result, distinct weighting of metrics and prioritization of particular realizations may depend on user needs. We provide high-level guidelines for such region-specific evaluations and address how CMIP7 might enable dynamical downscaling of a representative sample of high-quality models across representative shared socioeconomic pathways (SSPs).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

An Evolve-Then-Correct Reduced Order Model for Hidden Fluid Dynamics

In this paper, we put forth an evolve-then-correct reduced order modeling approach that combines intrusive and nonintrusive models to take hidden physical processes into account. Specifically, we split the underlying dynamics into known and unknown components. In the known part, we first utilize an intrusive Galerkin method projected on a set of basis functions obtained by proper orthogonal decomposition. We then present two variants of correction formula based on the assumption that the observed data are a manifestation of all relevant processes. The first method uses a standard least-squares regression with a quadratic approximation and requires solving a rank-deficient linear system, while the second approach employs a recurrent neural network emulator to account for the correction term. We further enhance our approach by using an orthonormality conforming basis interpolation approach on a Grassmannian manifold to address off-design conditions. The proposed framework is illustrated here with the application of two-dimensional co-rotating vortex simulations under modeling uncertainty. The results demonstrate highly accurate predictions underlining the effectiveness of the evolve-then-correct approach toward real-time simulations, where the full process model is not known a priori.

long short-term memory↗
DOE OSTI2024

PRIMO - The P&A Project Optimizer

In support of the Methane Emissions Reduction Program (MERP) and under the National Methane Emissions Reduction Initiative (NEMRI), the National Energy Technology Laboratory (NETL) and NETL site support contractors are developing and releasing an open-source decision-support tool (“PRIMO”) to help organizations determine which marginal conventional wells (MCWs) or other low-producing wells make the best candidates for plugging utilizing MERP funds, while also optimizing subsequent plugging and abandonment (P&A) campaigns for both program impact and efficiency. The framework—which is fully customizable—provides three main capabilities: 1. Ranking candidate wells (based on user preferences) 2. Identifying high-impact, high-efficiency P&A project candidates (with transparently computed scores for relevant metrics) 3. Comparing competing P&A projects quantitatively (through transparently computed project impact and efficiency scores) As such, PRIMO is a versatile, fully customizable tool that is meant to support organizations in making data-based, transparent, and defensible well selection and P&A project design decisions. For questions, comments or feedback, please contact primo@netl.doe.gov.

MERP↗
DOE OSTI2021

Symmetry analysis of tensors in the honeycomb lattice of edge-sharing octahedra

In this work, we obtain the most general forms of rank-2 and rank-3 tensors allowed by the crystal symmetries of the honeycomb lattice of edge-sharing octahedra for crystals belonging to different crystallographic point groups, including the monoclinic point group 2/$\textit{m}$ and the trigonal (or rhombohedral) point group $\bar{3}$. Our results are relevant for two-dimensional materials, such as α-RuCl 3 , CrI 3 , and the honeycomb iridates. We focus on the magnetic-field-dependent thermal conductivity tensor $κ_{ij}$ (H), which describes a system’s longitudinal and thermal Hall responses, for the cases when the magnetic field is applied along high-symmetry directions, perpendicular to the plane and in the plane. We highlight some unexpected results, such as the equality of fully longitudinal components to partially transverse components in rank-3 tensors for

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2022

Zeolitic Imidazolate Framework Membranes: Novel Synthesis Methods and Progress Toward Industrial Use

In the last decade, zeolitic imidazolate frameworks (ZIFs) have been studied extensively for their potential as selective separation membranes. In this review, we highlight unique structural properties of ZIFs that allow them to achieve certain important separations, like that of propylene from propane, and summarize the state of the art in ZIF thin-film deposition on porous substrates and their modification by postsynthesis treatments. We also review the reported membrane performance for representative membrane synthesis approaches and attempt to rank the synthesis methods with respect to potential for scalability. To compare the dependence of membrane performance on membrane synthesis methods and operating conditions, we map out fluxes and separation factors of selected ZIF-8 membranes for propylene/propane separation. Finally, we provide future directions considering the importance of further improvements in scalability, cost effectiveness, and stable performance under industrially relevant conditions.

Chemistry↗
DOE OSTI2022

Cyber Attack Sequences Generation for Electric Power Grid

Security assessment of cyber-physical energy systems (CPESs) such as the electric power grid is a critical operation to maintain availability, reliability, and quality of service in the presence of persistent threats from malicious cyber actors. Existing security assessment approaches such as penetration testing and red teaming rely on subject matter expert experience and forensic cyber analysis of historical events to perform realistic, threat-informed assessments of CPES defense. CPESs have a large attack surface because of the heterogeneity and complexity of underlying topology, devices, measurements, and vulnerabilities. The aforementioned approaches lead to partial coverage of the attack surface with a large set of unknown but possible exploits. There is a need to automate the CPES attack surface discovery and contextualize it for relevant, highly probable, real-world attack scenarios. We propose a methodology and framework to facilitate the discovery of the CPES attack surface. We present a multilayer attack graph with ranked attack sequences to describe CPES failure scenarios. We present a work-in-progress framework that lists key components to automate the attack modeling and sequence generation. We demonstrate the published National Electric Sector Cybersecurity Organization Resource CPES failure scenario to highlight the trustworthiness of generated attack sequences.

Dutta, Ashutosh↗
DOE OSTI2020

Mixed-Mechanism Stimulation Enabled Enhanced Geothermal Systems (CRADA FP00007509 Final Report)

In this project, we aimed to develop a robust, novel EGS design that would enable broad deployment of geothermal energy at costs competitive with other sources of renewable energy. The technical objectives included developing reservoir models for synthetic geothermal systems that meet target reservoir performance characteristics, performing a quantitative assessment of selection criteria for candidate geothermal sites, perform proppant studies under relevant geothermal conditions, and complete an induced seismicity risk analysis for potential geothermal development sites. The project team made significant progress towards these objectives. Specifically, we developed a prioritization to rank candidate sites for suitability of our technology based on 10 separate technical, operational, logistic, regulatory, and commercial criteria. The team performed laboratory testing at Lawrence Berkeley National Laboratory to characterize the functionality of several different types of proppant materials at temperatures of up to 200 C for durations of up to 9 weeks. We also created an Induced Seismicity Mitigation Plan for the top two sites selected for our future field demonstrations.

58 GEOSCIENCES↗
DOE OSTI2022

DISTEMA: distance map-based estimation of single protein model accuracy with attentive 2D convolutional neural network

Abstract Background Estimation of the accuracy (quality) of protein structural models is important for both prediction and use of protein structural models. Deep learning methods have been used to integrate protein structure features to predict the quality of protein models. Inter-residue distances are key information for predicting protein’s tertiary structures and therefore have good potentials to predict the quality of protein structural models. However, few methods have been developed to fully take advantage of predicted inter-residue distance maps to estimate the accuracy of a single protein structural model. Result We developed an attentive 2D convolutional neural network (CNN) with channel-wise attention to take only a raw difference map between the inter-residue distance map calculated from a single protein model and the distance map predicted from the protein sequence as input to predict the quality of the model. The network comprises multiple convolutional layers, batch normalization layers, dense layers, and Squeeze-and-Excitation blocks with attention to automatically extract features relevant to protein model quality from the raw input without using any expert-curated features. We evaluated DISTEMA’s capability of selecting the best models for CASP13 targets in terms of ranking loss of GDT-TS score. The ranking loss of DISTEMA is 0.079, lower than several state-of-the-art single-model quality assessment methods. Conclusion This work demonstrates that using raw inter-residue distance information with deep learning can predict the quality of protein structural models reasonably well. DISTEMA is freely at https://github.com/jianlin-cheng/DISTEMA

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Natural Language Processing to Inform Agent-Based Modeling: With Application to Modeling Adoption of Medium-Duty Electric Vehicles

Agent-based socio-technical modeling of medium- and heavy-duty (MDHD) electric vehicle (EV) adoption has the potential to provide analysis, prediction, and gui. This paper describes new applications of text analysis developed through machine learning (ML) to build and understand relevant topics and their saliency in the published discourse on adoption of MDHD EVs. This work contributes to the state of the art in topic mining models by defining a new metric of topic ranking (START) that quantifies the importance of predefined topics within the corpus using weighted results for predefined topics from two topic modeling approaches: Latent Dirichlet Allocation (LDA) and BERTopic. The START metric is then demonstrated in practice to model how academia and industry view the EV adoption process based on the respective texts published by these groups. Results show that academic literature places more emphasis on categories of interests such as norms/attitudes and adopter knowledge, while trade journals tend to emphasize long-term cost more than academia. The two bodies of literature agree on the importance of policy and incentives in MDHD EV adoption. Together these results illustrate the potential to use ML-based text analysis to populate the characteristics of agent-based socio-technical models.

Electric vehicle adoption, fleet electrification, ↗
DOE OSTI2023

Examining the potential for detecting simultaneous noble gas and aerosol samples in the international monitoring system radionuclide network

The purpose of the Comprehensive Nuclear-Test-Ban Treaty (CTBT) is to establish a legally binding ban on nuclear weapon test explosions or any other nuclear explosions. The Preparatory Commission for the CTBT Organization (CTBTO PrepCom) is developing the International Monitoring System (IMS) that includes a global network of 80 stations to monitor for airborne radionuclides upon entry into force of the CTBT. All 80 radionuclide stations will monitor for particulate radionuclides and at least half of the stations will monitor for radioxenon. The airborne radionuclide monitoring is an important verification technology both for the detection of a radionuclide release and in the determination of whether the release event originates from a nuclear explosion as opposed to an industrial use of nuclear materials. Nuclear power plants and many medical isotope production facilities release radioxenon into the atmosphere. Low levels of a few particulate isotopes, such as iodine, may also be released. Detections of multiple isotopes are useful for screening the radionuclide samples for relevance to the Treaty. This paper examines the anticipated joint detections in the IMS of noble gas and particulate isotopes from underground nuclear explosions where breaches in the underground containment vents from low levels to up to 1% of the radionuclide inventory of the resulting fission products to the atmosphere. Detection probabilities are based on 844 simulated release events spaced out at 17 release locations and one year in time. Six different release (venting) scenarios, including two fractionated scenarios, were analyzed. When ranked by detection probability, 11 particulate isotopes and one noble gas isotope ( 133 Xe) appear in the top 20 isotopes for all six release scenarios. Using the 11 particulate isotopes and the one noble gas isotope, the IMS has nearly the same detection probability as when 45 particulate and 4 noble gas isotopes are used. Thus, a limited list of relevant radionuclides may be sufficient for treaty verification purposes. The probability that at least one particulate and at least one radioxenon isotope would be detected in the IMS from the release events ranged from 0.15 to 0.86 depending on the release scenario.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗