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All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Integration of Open-Source URBANopt and Dragonfly Energy Modeling Capabilities into Practitioner Workflows for District-Scale Planning and Design

High-performance districts and communities offer opportunities for reducing energy use, emissions, and costs, and can be instrumental in helping cities achieve their climate goals. The design of such communities requires identification of opportunities early on and their re-evaluation throughout the planning process. There is a need for energy modeling tools that connect 3D Computer-Aided Design (CAD) platforms to simulation engines, enabling detailed energy analysis of districts within the workflows and tools used by practitioners. This paper introduces the Dragonfly and URBANoptTM combined toolset that supports the creation of urban models from a range of geometry formats typically used by designers and planners, and provides an integrated pathway to simulate district-scale energy systems. The toolset is piloted by a global architecture and master planning firm to evaluate several key urban-scale technical questions for the design of a district in Chicago. The findings indicate that, while energy savings can be achieved through traditional architectural studies and enhancements to individual building efficiency, the modeling toolset helps identify additional savings and insights that can be achieved when considering district-scale energy systems. Finally, this study demonstrates how the Dragonfly/URBANopt toolset can integrate with master planning workflows, thereby enabling an iterative performance-based design process.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2023

Unusual modifications of protein biomarkers expressed by plasmid, prophage, and bacterial host of pathogenic Escherichia coli identified using top‐down proteomic analysis

Rationale Pathogenic bacteria often carry prophage (bacterial viruses) and plasmids (small circular pieces of DNA) that may harbor toxin, antibacterial, and antibiotic resistance genes. Proteomic characterization of pathogenic bacteria should include the identification of host proteins and proteins produced by prophage and plasmid genomes. Methods Protein biomarkers of two strains of Shiga toxin–producingEscherichia coli(STEC) were identified using antibiotic induction, matrix‐assisted laser desorption/ionization tandem time‐of‐flight (MALDI‐TOF‐TOF) tandem mass spectrometry (MS/MS) with post‐source decay (PSD), top‐down proteomic (TDP) analysis, and plasmid sequencing. Alphafold2 was also used to compare predicted in silico structures of the identified proteins to prominent fragment ions generated using MS/MS‐PSD. Strain samples were also analyzed with and without chemical reduction treatment to detect the attachment of pendant groups bound by thioester or disulfide bonds. Results Shiga toxin was detected and/or identified in both STEC strains. For the first time, we also identified the osmotically inducible protein (OsmY) whose sequence unexpectedly had two forms: a full and a truncated sequence. The truncated OsmY terminates in the middle of an α‐helix as determined by Alphafold2. A plasmid‐encoded colicin immunity protein was also identified with and without attachment of an unidentified cysteine‐bound pendant group (~307 Da). Plasmid sequencing confirmed top‐down analysis and the identification of a promoter upstream of the immunity gene that is activated by antibiotic induction, that is, SOS box. Conclusions TDP analysis, coupled with other techniques (e.g., antibiotic induction, chemical reduction, plasmid sequencing, and in silico protein modeling), is a powerful tool to identify proteins (and their modifications), including prophage‐ and plasmid‐encoded proteins, produced by pathogenic microorganisms.

Biochemistry & Molecular Biology↗
DOE OSTI2021

Optical Microscopy-Guided Laser Ablation Electrospray Ionization Ion Mobility Mass Spectrometry: Ambient Single Cell Metabolomics with Increased Confidence in Molecular Identification

Single cell analysis is a field of increasing interest as new tools are continually being developed to understand intercellular differences within large cell populations. Laser-ablation electrospray ionization mass spectrometry (LAESI-MS) is an emerging technique for single cell metabolomics. Over the years, it has been validated that this ionization technique is advantageous for probing the molecular content of individual cells in situ. Here, we report the integration of a microscope into the optical train of the LAESI source to allow for visually informed ambient in situ single cell analysis. Additionally, we have coupled this ‘LAESI microscope’ to a drift-tube ion mobility mass spectrometer to enable separation of isobaric species and allow for the determination of ion collision cross sections in conjunction with accurate mass measurements. This combined information helps provide higher confidence for structural assignment of molecules ablated from single cells. Here, we show that this system enables the analysis of the metabolite content of Allium cepa epidermal cells with high confidence structural identification together with their spatial locations within a tissue.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Expediting DECam Multimessenger Counterpart Searches with Convolutional Neural Networks

Searches for counterparts to multimessenger events with optical imagers use difference imaging to detect new transient sources. However, even with existing artifact-detection algorithms, this process simultaneously returns several classes of false positives: false detections from poor-quality image subtractions, false detections from low signal-to-noise images, and detections of preexisting variable sources. Currently, human visual inspection to remove the false positives is a central part of multimessenger follow-up observations, but when next generation gravitational wave and neutrino detectors come online and increase the rate of multimessenger events, the visual inspection process will be prohibitively expensive. We approach this problem with two convolutional neural networks operating on the difference imaging outputs. The first network focuses on removing false detections and demonstrates an accuracy of 92% on our data set. The second network focuses on sorting all real detections by the probability of being a transient source within a host galaxy and distinguishes between various classes of images that previously required additional human inspection. We find the number of images requiring human inspection will decrease by a factor of 1.5 using our approach alone and a factor of 3.6 using our approach in combination with existing algorithms, facilitating rapid multimessenger counterpart identification by the astronomical community.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
DOE OSTI2017

Identification of bottlenecks in the accumulation of cyclic fatty acids in camelina seed oil

Modified fatty acids (mFA) have diverse uses, e.g., cyclopropane fatty acids (CPA) are feedstocks for producing coatings, lubricants, plastics, and cosmetics. The expression of mFA-producing enzymes in crop and model plants generally results in lower levels of mFA accumulation than in their natural-occurring source plants. In order to further our understanding of metabolic bottlenecks that limit mFA accumulation, we generated transgenic Camelina sativa lines co-expressing Escherichia coli cyclopropane synthase (EcCPS) and Sterculia foetida lysophosphatidic acid acyltransferase (SfLPAT). In contrast to transgenic CPA-accumulating Arabidopsis, CPA accumulation in camelina caused only minor changes in seed weight, germination rate, oil accumulation, and seedling development. CPA accumulated to much higher levels in membrane than storage lipids, comprising more than 60% of total fatty acid in both phosphatidylcholine (PC) and phosphatidylethanolamine (PE) versus 26% in diacylglycerol (DAG) and 12% in triacylglycerol (TAG) indicating bottlenecks in the transfer of CPA from PC to DAG and from DAG to TAG. Upon coexpression of SfLPAT with EcCPS, di-CPA-PC increased by ~50% relative to lines expressing EcCPS alone with the di-CPA-PC primarily observed in the embryonic axis and mono-CPA-PC primarily in cotyledon tissue. EcCPS-SfLPAT lines revealed a redistribution of CPA from the sn-1 to sn-2 positions within PC and PE that was associated with a doubling of CPA accumulation in both DAG and TAG. Finally, the identification of metabolic bottlenecks in acyl transfer between site of synthesis (phospholipids) and deposition in storage oils (TAGs) lays the foundation for the optimizing CPA accumulation through directed engineering of oil synthesis in target crops.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Bioinformatics and 3D Structural Analysis of the Coronavirus Main Protease Active Site Diversity

Coronaviruses (Coronaviridae) such as SARS‐CoV‐2 (severe acute respiratory syndrome coronavirus) and MERS‐CoV (Middle East respiratory syndrome coronavirus) have been the source of recent outbreaks and global health concerns. While vaccines have been essential for controlling the SARS‐CoV‐2 (COVID‐19) pandemic, it is uncertain whether they will be effective against future coronavirus strains. Therefore, identification or design of a broad‐spectrum drug that targets highly conserved regions of the main protease of multiple coronavirus strains is essential in the long term. As part of a virtual summer research experience with the RCSB PDB, bioinformatics tools were employed to predict and construct 3D models of the coronavirus main protease (MPro) using SARS‐CoV‐2 as the template, with a focus on mutational trends and active sites. This study focused on the active sites of MPro, a cysteine protease essential for viral assembly and replication. Sequence alignments and structure modeling of MPro structures has identified conserved regions across multiple coronavirus strains. Inhibition of MPro halts coronavirus replication, making it an ideal drug target, and studies of MPro may foster and accelerate the discovery of high affinity broad‐spectrum drugs.

Wu Wu, Amy↗
DOE OSTI2022

High-throughput identification of novel heat tolerance genes via genome-wide pooled mutant screens in the model green alga Chlamydomonas reinhardtii

Different high temperatures adversely affect crop and algal yields with various responses in photosynthetic cells. The list of genes required for thermotolerance remains elusive. Additionally, it is unclear how carbon source availability affects heat responses in plants and algae. Here, we utilized the insertional, indexed, genome-saturating mutant library of the unicellular, eukaryotic green alga Chlamydomonas reinhardtii to perform genome-wide, quantitative, pooled screens under moderate (35°C) or acute (40°C) high temperatures with or without organic carbon sources. We identified heat-sensitive mutants based on quantitative growth rates and identified putative heat tolerance genes (HTGs). By triangulating HTGs with heat-induced transcripts or proteins in wildtype cultures and MapMan functional annotations, we presented a high/medium-confidence list of 933 Chlamydomonas genes with putative roles in heat tolerance. Triangulated HTGs include those with known thermotolerance roles and novel genes with little or no functional annotation. About 50% of these high-confidence HTGs in Chlamydomonas have orthologs in green lineage organisms, including crop species. Arabidopsis thaliana mutants deficient in the ortholog of a high-confidence Chlamydomonas HTG were also heat sensitive. This work expands our knowledge of heat responses in photosynthetic cells and provides engineering targets to improve thermotolerance in algae and crops.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Accelerator commissioning and rare isotope identification at the Facility for Rare Isotope Beams

In 2008, Michigan State University was selected to establish the Facility for Rare Isotope Beams (FRIB). Construction of the FRIB accelerator was completed in January 2022. Phased accelerator commissioning with heavy ion beams started in 2017 with the normal-conducting ion source and radio-frequency quadrupole. In April 2021, the full FRIB driver linear accelerator (linac) was commissioned, with heavy ion beams accelerated to energies above 200 MeV/nucleon by 324 superconducting radiofrequency (SRF) resonators operating at 2 K and 4 K with liquid-helium cooling. Further, in preparation for high-power operation, a liquid lithium charge stripper was commissioned with heavy ion beams up to uranium-238, followed by the simultaneous acceleration of multiple-charge-state heavy ion beams to energies above 200 MeV/nucleon. In December 2021, selenium-84 was produced with the FRIB target using a krypton-86 primary beam, demonstrating FRIB’s capability for scientific discovery.

07 ISOTOPE AND RADIATION SOURCES↗
DOE OSTI2026

GADRAS + Geant4 Simulated Gamma Spectra Dataset

This dataset contains GADRAS and Geant4 simulated gamma-ray energy spectra used in the papers "Sim-to-real supervised domain adaptation for radioisotope identification" (https://doi.org/10.1016/j.nima.2025.171159) and "Unsupervised domain adaptation for radioisotope identification in gamma spectroscopy" (https://arxiv.org/abs/2603.05719). Each spectrum contains a mixture of several different radioisotopes, and the goal of the analysis is to leverage domain adaptation techniques to use a model trained on source-domain spectra (GADRAS) to classify target-domain spectra (Geant4).

Lalor, Peter William [Pacific Northwest National L↗
DOE OSTI2022

Discovering hydrothermalism from Afar: In Situ methane instrumentation and change-point detection for decision-making

Seafloor hydrothermalism plays a critical role in fundamental interactions between geochemical and biological processes in the deep ocean. A significant number of hydrothermal vents are hypothesized to exist, but many of these remain undiscovered due in part to the difficulty of detecting hydrothermalism using standard sensors on rosettes towed in the water column or robotic platforms performing surveys. Here, we use in situ methane sensors to complement standard sensing technology for hydrothermalism discovery and compare sensors on a towed rosette and an autonomous underwater vehicle (AUV) during a 17 km long transect in the Northern Guaymas Basin in the Gulf of California. This transect spatially intersected with a known hydrothermally active venting site. These data show that methane signalled possible hydrothermal-activity 1.5–3 km laterally (100–150 m vertically) from a known vent. Methane as a signal for hydrothermalism performed similarly to standard turbidity sensors (plume detection 2.2–3.3 km from reference source), and more sensitively and clearly than temperature, salinity, and oxygen instruments which readily respond to physical mixing in background seawater. We additionally introduce change-point detection algorithms—streaming cross-correlation and regime identification—as a means of real-time hydrothermalism discovery and discuss related data supervision technologies that could be used in planning, executing, and monitoring explorative surveys for hydrothermalism.

58 GEOSCIENCES↗
DOE OSTI2022

A Simple and Accurate Energy-Detector-Based Transient Waveform Detection for Smart Grids: Real-World Field Data Performance

Integration of distributed energy sources, advanced meshed operation, sensors, automation, and communication networks all contribute to autonomous operations and decision-making processes utilized in the grid. Therefore, smart grid systems require sophisticated supporting structures. Furthermore, rapid detection and identification of disturbances and transients are a necessary first step towards situationally aware smart grid systems. This way, high-level monitoring is achieved and the entire system kept operational. Even though smart grid systems are unavoidably sophisticated, low-complexity algorithms need to be developed for real-time sensing on the edge and online applications to alert stakeholders in the event of an anomaly. In this study, the simplest form of anomaly detection mechanism in the absence of any a priori knowledge, namely, the energy detector (also known as radiometer in the field of wireless communications and signal processing), is investigated as a triggering mechanism, which may include automated alerts and notifications for grid anomalies. In contrast to the mainstream literature, it does not rely on transform domain tools; therefore, utmost design and implementation simplicity are attained. Performance results of the proposed energy detector algorithm are validated by real power system data obtained from the DOE/EPRI National Database of power system events and the Grid Signature Library.

24 POWER TRANSMISSION AND DISTRIBUTION↗
NASA NTRS1975

Marking LANDSAT images with small mirror reflectors

Uniquely identifiable artificial landmarks were generated in LANDSAT imagery by making use of specular solar reflection from small, easily transportable mirrors. The results are impressive in well-registered color composite enlargements, where the mirror returns appear as bright white spots. The signatures are unique enough that returns can be readily located in the computer compatible tape records either manually or by machine search. As embodied in experiments to date, the system is entirely passive. Mirrors must be carefully positioned prior to each satellite pass, but the required angle calculations are simple enough to be made on a hand calculator and the required input data are easily available. Possible applications of the technique include providing site identification and geodetic control in remote regions of the earth, enhancement of small targets such as offshore oil derricks, providing atmospheric transmission data coincident with other LANDSAT experiments, and providing a nearly perfect optical point source for overall system checkout.

Evans, W. E.↗
NASA NTRS1989

A search for X-ray counterparts to small-diameter Galactic radio sources

By comparing observations obtained with the Einstein Observatory to the Molonglo catalog of small-diameter radio sources near the Galactic plane, the number of supernova remnants contained in the radio sample has been constrained. The one known remnant among the 47 sources falling in Einstein fields was easily detected and another candidate remnant (G274.7-2.8) was discovered. The latter object has properties consistent with that of either a young shell-like or composite remnant, although an identification as a radio-loud quasar cannot be excluded. Apart from cases in which very large absorbing column densities are appropriate, upper limits to the X-ray emission from the remainder of the sample places most of the objects outside of the ranges of parameters that characterize the Galactic remnant population.

Helfand, D. J.↗
NASA NTRS2003

Aeroservoelastic Model Validation and Test Data Analysis of the F/A-18 Active Aeroelastic Wing

Model validation and flight test data analysis require careful consideration of the effects of uncertainty, noise, and nonlinearity. Uncertainty prevails in the data analysis techniques and results in a composite model uncertainty from unmodeled dynamics, assumptions and mechanics of the estimation procedures, noise, and nonlinearity. A fundamental requirement for reliable and robust model development is an attempt to account for each of these sources of error, in particular, for model validation, robust stability prediction, and flight control system development. This paper is concerned with data processing procedures for uncertainty reduction in model validation for stability estimation and nonlinear identification. F/A-18 Active Aeroelastic Wing (AAW) aircraft data is used to demonstrate signal representation effects on uncertain model development, stability estimation, and nonlinear identification. Data is decomposed using adaptive orthonormal best-basis and wavelet-basis signal decompositions for signal denoising into linear and nonlinear identification algorithms. Nonlinear identification from a wavelet-based Volterra kernel procedure is used to extract nonlinear dynamics from aeroelastic responses, and to assist model development and uncertainty reduction for model validation and stability prediction by removing a class of nonlinearity from the uncertainty.

Brenner, Martin J.↗
DOE OSTI2020

Improvement of Quantification in Non-Destructive Characterization of Radioactive Waste Packages -Introduction to the Ideas of a Currently Started Project - 20197

For the characterization of radioactive waste packages (e.g. 200-L drums) with inhomogeneous activity and density distributions preferably non-destructive methods like segmented gamma scanning and transmission measurements are applied. While the first is used for identification of the radioactive inventory, both are necessary for a reliable activity quantification. Although at nuclear facilities, segmented gamma scanner are state-of-the-art and are mostly equipped with a vertically moveable transmission source the combining of this data and further a-priori information improving accuracy in data estimation giving realistic, reliable and traceable uncertainty estimations are improvable. This challenge is tackled by a R and D project funded by the German Federal Ministry of Education and Research (BMBF). The boundary conditions for this project are (i) taking into account the typical instrumentation available at nuclear facilities, (ii) minimize the overall measurement time and (iii) combining data from emission and transmission measurements by Bayesian methods. For the R and D project, being still in its initial stage, the basic ideas, the data used for evaluation and the result of a preliminary investigation demonstrating the proof of principle are presented. Additionally, some first aspects on spatial resolution in emission and transmission measurements are addressed. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2020

Development of Gamma Background Radiation Digital Twin with Machine Learning Algorithms: Application of Unsupervised Machine Learning to Detection of Anomalies and Nuisances in Gamma Background Radiation Environmental Screening Data

Environmental screening of gamma radiation consists of detecting weak nuisance and anomaly signal in the presence of strong and highly varying background. In a typical scenario, a mobile detector-spectrometer continuously measures gamma radiation spectra in short, e.g., one-second, signal acquisition intervals. The measurement data is a 2D matrix, where one dimension is gamma ray energy, and the other dimension is the number of measurements or total time. In principle, gamma radiation sources can be detected and identified from the measured data by their unique spectral lines. Detecting sources from data measured in a search scenario is difficult due to the highly varying background because of naturally occurring radioactive material (NORM), and low signal-to-noise ratio (S/N) of spectral signal measured during one-second acquisition intervals. The objective of this work is to explore unsupervised machine learning (ML) algorithms for development of a digital twin of gamma radiation background, and for detection and identification of weak nuisances and anomalies events in the presence of highly fluctuating background. In one segment of work, we developed a gamma background estimation model using a Longshort term memory (LSTM) network for one-step CPS time series prediction. The LSTM model was validated with two data sets of measurements from two independent NaI detectors positioned on a mobile platform. The data sets contained background radiation only and no orphan isotope sources. The LSTM model was constructed and tested using data from one of the detectors. Performance of the LSTM model was validate through one-step prediction of CPS time series of another NaI detector without re-training. This approach allows to create a digital twin for nuclear background estimation. Using LSTM, it could be possible to detect a source through subtraction of the estimated counts from the measured background. In another segment of work, we investigated detection of gamma emitting sources in the presence of complex background using unsupervised machine learning. Spectral lines of isotopes are difficult to observe in one-second measurements. Averaging over the entire measurement campaign data set reveals spectral lines of most common background isotopes. Spectral lines of orphan sources, which might appear only in a few measurements during the campaign, will be washed out if averaging is performed over the entire measurement data set. The approach we have explored consists of extracting one-second measurements containing weak spectral features through data clustering. Averaging one-second spectra in a cluster should reveal the presence of anomaly sources. We created two ML models using K-means clustering and Neural Network Self-organizing Map (SOM). Performance of these ML models was benchmarked using search data. One data set contained 137 Cs source, and another dataset contained 131 I source.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS1991

Identification and characterization of extraterrestrial non-chondritic interplanetary dust

Interplanetary dust particles (IDPs) are among the most pristine and primitive extraterrestrial materials available for direct study. Most of the stratospheric particles selected for study from the JSC Curatorial Collection were chondritic in composition (major element abundances within a factor of two of chondritic meteorites) because this composition virtually ensures that the particle is from an extraterrestrial source. It is likely that some of the most interesting classes of IDP's have not been recognized simply because they are not chondritic or do not fit established criteria for extraterrestrial origin. Indeed, mass spectroscopy data from the Giotto Flyby of comet Halley indicate that a substantial fraction of the dust is in the submicron size range and that a majority of these particles contain C, H, O, and/or N as major elements. The preponderance of CHON particles in the coma of Halley implies that similar particles may exist in the JSC stratospheric dust collection. However, the JSC collection also contains a variety of stratospheric contaminants from terrestrial sources which have these same characteristics. Because established criteria for extraterrestrial origin may not apply to such particles in individual cases, and integrated approach is required in which a variety of analysis techniques are applied to the same particle. Non-chondritic IDP's, like their chondritic counterparts, can be used to elucidate pre- and early solar system processes and conditions. The study of non-chondritic IDP's may additionally yield unique information which bears on the nature of cometary bodies and the processing of carbonaceous and other low atomic number materials. A suite of complementary techniques, including Low Voltage Scanning Electron Microscopy (LVSEM), Energy-Dispersive X-ray Microanalysis (EDX), Secondary Ion Mass Spectrometry (SIMS) isotope-ratio imaging and Analytical Electron Microscopy (AEM), were utilized to accomplish the following two objectives: (1) to develop criteria for the unequivocal identification of extraterrestrial non-chondritic IDP's; and (2) to infer IDP parent body, solar nebula, and pre-solar conditions through the study of phases, textures, and components contained within non-chondritic IDP's. The general approach taken is designed to maximize the total information obtained from each particle. Techniques will be applied in order from least destructive to most destructive.

Blake, D. F.↗