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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 847 records · Page 47
All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

Harnessing the predicted maize pan-interactome for putative gene function prediction and prioritization of candidate genes for important traits

Abstract The recent assembly and annotation of the 26 maize nested association mapping population founder inbreds have enabled large-scale pan-genomic comparative studies. These studies have expanded our understanding of agronomically important traits by integrating pan-transcriptomic data with trait-specific gene candidates from previous association mapping results. In contrast to the availability of pan-transcriptomic data, obtaining reliable protein–protein interaction (PPI) data has remained a challenge due to its high cost and complexity. We generated predicted PPI networks for each of the 26 genomes using the established STRING database. The individual genome-interactomes were then integrated to generate core- and pan-interactomes. We deployed the PPI clustering algorithm ClusterONE to identify numerous PPI clusters that were functionally annotated using gene ontology (GO) functional enrichment, demonstrating a diverse range of enriched GO terms across different clusters. Additional cluster annotations were generated by integrating gene coexpression data and gene description annotations, providing additional useful information. We show that the functionally annotated PPI clusters establish a useful framework for protein function prediction and prioritization of candidate genes of interest. Our study not only provides a comprehensive resource of predicted PPI networks for 26 maize genomes but also offers annotated interactome clusters for predicting protein functions and prioritizing gene candidates. The source code for the Python implementation of the analysis workflow and a standalone web application for accessing the analysis results are available at https://github.com/eporetsky/PanPPI.

Genetics & Heredity↗
DOE OSTI2020

The impact of spectroscopic incompleteness in direct calibration of redshift distributions for weak lensing surveys

ABSTRACT Obtaining accurate distributions of galaxy redshifts is a critical aspect of weak lensing cosmology experiments. One of the methods used to estimate and validate redshift distributions is to apply weights to a spectroscopic sample, so that their weighted photometry distribution matches the target sample. In this work, we estimate the selection bias in redshift that is introduced in this procedure. We do so by simulating the process of assembling a spectroscopic sample (including observer-assigned confidence flags) and highlight the impacts of spectroscopic target selection and redshift failures. We use the first year (Y1) weak lensing analysis in Dark Energy Survey (DES) as an example data set but the implications generalize to all similar weak lensing surveys. We find that using colour cuts that are not available to the weak lensing galaxies can introduce biases of up to Δz ∼ 0.04 in the weighted mean redshift of different redshift intervals (Δz ∼ 0.015 in the case most relevant to DES). To assess the impact of incompleteness in spectroscopic samples, we select only objects with high observer-defined confidence flags and compare the weighted mean redshift with the true mean. We find that the mean redshift of the DES Y1 weak lensing sample is typically biased at the Δz = 0.005−0.05 level after the weighting is applied. The bias we uncover can have either sign, depending on the samples and redshift interval considered. For the highest redshift bin, the bias is larger than the uncertainties in the other DES Y1 redshift calibration methods, justifying the decision of not using this method for the redshift estimations. We discuss several methods to mitigate this bias.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Static metrology of the meter-scale deformable heliostat

This paper describes a heliostat metrology system which is developed based on deflectometry, utilizing a static perforated panel instead of conventional dynamic monitor displays to provide incident rays. The developed method is named static screen deflectometry (SSD). This robust and scalable method is especially valuable for outdoor tests of large reflectors used in concentrating solar-thermal power (CSP) systems. The developed method has been successfully demonstrated on a 2.4 𝑚 × 3.3 𝑚 float glass deformable reflector bent to focus sunlight at 113 𝑚 distance throughout a day. From images obtained from a camera at 50𝑚 distance, the reflector surface was measured to an accuracy of less than 1 𝑚𝑟𝑎𝑑 rms slope error in the full test scope.

14 SOLAR ENERGY↗
DOE OSTI2021

SAR Geolocation Using Range-Only Multilateration

Radar is by its basic nature a ranging instrument. If radar range measurements from multiple directions can be made and assembled, then multilateration allows locating a feature common to the set of Synthetic Aperture Radar (SAR) images to an accurate 3-D coordinate. The ability to employ effective multilateration algorithms is highly dependent on the geometry of the data collections, and the accuracy with which relative range measurements can be made. The problem can be cast as a least-squares exercise, and the concept of Dilution of Precision can describe the accuracy and precision with which a 3-D location can be made.

47 OTHER INSTRUMENTATION↗
DOE OSTI2021

SAR Geolocation Using Range-Doppler Multilateration

Radar is by its basic nature a ranging instrument. If radar range and range-rate measurements from multiple directions can be made and assembled, then multilateration allows locating a feature common to the set of Synthetic Aperture Radar (SAR) images to an accurate 3-D coordinate. The ability to employ effective multilateration algorithms is highly dependent on the geometry of the data collections, and the accuracy with which relative range measurements can be made. The problem can be cast as a least-squares exercise, and the concept of Dilution of Precision can describe the accuracy and precision with which a 3-D location can be made.

42 ENGINEERING↗
DOE OSTI2021

Narrative for Bioproject PRJNA623111

This Narrative is part of a collection used in publications focused on the microbial ecology of fjord sediment in the high Arctic, Svalbard. This paper took a genome-centric approach to uncover novel metabolic capabilities of the Acidobacteriota clade. Metagenomic data was coupled with amplicon sequencing of 16S rRNA and dissimilatory sulfite reductase (dsrB) genes, and transcripts (available under NCBI-Genbank Bioproject PRJNA623111), and gene expression analyses of tetrathionate-amended microcosms. This Narrative contains the metagenomic assemblies that were constructed within KBase for reproducibility. These include: stnF metagenome assembly stnAB metagenome assembly stnAC metagenome assembly These metagenome assemblies served as the launching point for an additional publication focused on a different clade of bacteria (Buongiorno et al., 2020). Link to that Narrative landing page here. Please cite: Flieder, Mathias, Joy Buongiorno, Craig W. Herbold, Bela Hausmann, Thomas Rattei, Karen G. Lloyd, Alexander Loy, and Kenneth Wasmund. "Novel taxa of Acidobacteriota implicated in seafloor sulfur cycling." The ISME Journal (2021): 1-22.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Modeling Non-UO2 Fuel With UNF-ST&DARDS

The U.S. Department of Energy’s Used Nuclear Fuel-Storage, Transportation & Disposal Analysis Resource and Data System (UNF-ST&DARDS) provides an easy-to-use interface to analyze irradiated UO2 fuel by allowing all analysis to be performed within the software and being able to store and use dozens of fuel assembly, canister, and cask designs [1]. However, performing these same analyses with non-UO2 fuel, such as UN or U3Si2, requires more user intervention in the process. This work uses UN, UN-ZrO2, and U3Si2 fuel to demonstrate how to perform criticality analyses in the current versions of UNF-ST&DARDS and how a non-UO2 fuel will compare to UO2. This work is part of a larger effort that also includes shielding and thermal analyses, but they will not be discussed.

Ivanusa, Pavlo↗
DOE OSTI2026

How does drought affect residential water demand and price elasticity?

Urban water scarcity is an important social and economic concern, particularly as the intensity, duration, and frequency of droughts is increasing in many regions. We consider whether drought induces changes to water demand and the price elasticity of demand for water that may last beyond a drought’s official end date. If drought shocks prompt long-term changes in water demand behavior, and these changes occur at broad geographic scale, they could have important implications for modeling adaptive responses to water scarcity. We assemble a novel dataset on residential water demand and pricing in the western United States to test empirically for effects of drought on water demand and price elasticity. We perform our analysis with aggregate quantity, price, and drought data, accounting for endogenous prices under increasing-block water tariffs and using both average and marginal water fees in estimating water demand functions. Results are consistent with the hypothesis that households may become less price-sensitive after exposure to drought. However, we find no systematic evidence of long-run, drought-related reductions in water demand, itself.

demand hardening↗
DOE OSTI2025

PDB-IHM: A System for Deposition, Curation, Validation, and Dissemination of Integrative Structures

Structures of many large biomolecular assemblies are now being determined using integrative approaches. In these approaches, information derived from multiple experimental and computational methods is combined to compute three-dimensional structures of multi-protein complexes and other macromolecular machines. A standalone prototype data resource for integrative structures called PDB-Dev was built, based on recommendations of the Integrative and Hybrid Methods (IHM) Task Force of the Worldwide Protein Data Bank (wwPDB). This effort included developing data standards and software tools for collecting, curating, validating, visualizing, archiving, and disseminating integrative structures that span diverse spatiotemporal scales and conformational states. Mechanisms have been created to validate integrative structures based on the experimental data underpinning them. Building upon this foundational framework, PDB-Dev has been further expanded to handle large dynamic macromolecular systems and integrative structures that combine, for example, experimental restraints with atomic coordinates computed by machine learning algorithms. Data standards and supporting tools have also been extended to capture information about biomolecular dynamics, such as conformational transitions and related kinetic data derived from biophysical methods. Recently, PDB-Dev was unified with the PDB archive and rebranded as PDB-IHM (pdb-ihm.org), further promoting FAIR (Findable, Accessible, Interoperable, and Reusable) principles of data stewardship for integrative structural biology.

IHMCIF↗
DOE OSTI2020

The genome of jojoba ( Simmondsia chinensis ): A taxonomically isolated species that directs wax ester accumulation in its seeds

Seeds of the desert shrub, jojoba ( Simmondsia chinensis ), are an abundant, renewable source of liquid wax esters, which are valued additives in cosmetic products and industrial lubricants. Jojoba is relegated to its own taxonomic family, and there is little genetic information available to elucidate its phylogeny. Here, we report the high-quality, 887-Mb genome of jojoba assembled into 26 chromosomes with 23,490 protein-coding genes. The jojoba genome has only the whole-genome triplication (γ) shared among eudicots and no recent duplications. These genomic resources coupled with extensive transcriptome, proteome, and lipidome data helped to define heterogeneous pathways and machinery for lipid synthesis and storage, provided missing evolutionary history information for this taxonomically segregated dioecious plant species, and will support efforts to improve the agronomic properties of jojoba.

Sturtevant, Drew↗
DOE OSTI2022

IER 555: Godiva Benchmark Update CED-2 (Final Design Report)

The International Criticality Safety Benchmark Evaluation Project (ICSBEP) evaluation of the Godiva IV critical assembly, HEU-MET-FAST-086: GODIVA-IV DELAYED-CRITICAL EXPERIMENTS (HMF-086), was completed by Russ Mosteller. Five critical experiment configurations performed at the Los Alamos National Laboratory (LANL) Technical Area (TA)-18 were evaluated as acceptable benchmark cases. The five cases consist of four delayed critical configurations which differ in control rod positions and one prompt critical configuration. All cases calculated a lower $k_{eff}$ than measured by experiment. This data is referred to as the TA-18 Godiva IV benchmark in this report. In 2005, Godiva IV was disassembled for relocation to the Nevada Test Site (NTS), now Nevada National Security Site (NNSS), at the National Criticality Experiments Research Center (NCERC). Following the disassembly and subsequent reassembly and startup of Godiva IV at NCERC, additional information about the Godiva IV components was obtained. An errata note was added to the HMF-086 evaluation in the ICSBEP handbook to provide this new information until a revision to the benchmark evaluation could be performed. In addition to those corrections, there are differences between the Godiva IV assembly at TA-18 and the Godiva IV assembly at NCERC. These differences include both assembly-specific differences (differences in the safety block gap, differences in the control rod positions, a new NCERC Top Hat and contamination shield) as well as environmental differences, such as the size and shape of the experimental building where the assembly is located. An additional model with similar cases, referred to as the NCERC Godiva IV benchmark in this report, will be added to the revised HMF-086 to capture these additional differences. This will provide the best benchmark model of Godiva for use by those performing experiments at NCERC. The IER 555 CED-2 report documents the information that will be updated in the HMF-086 revision, both the corrections to the TA-18 Godiva IV benchmark and the subsequent changes to create a NCERC Godiva IV benchmark. It describes the measurements that will be performed for cases similar to those performed at TA-18. It also describes measurements that will be included in the evaluation as additional data.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2026

Discovery of additional ancient genome duplications in yeasts

Whole-genome duplication (WGD) has had profound macroevolutionary impacts on diverse lineages, preceding adaptive radiations in vertebrates, teleost fish, and angiosperms. In contrast to the many known ancient WGDs in animals, and especially plants, we are aware of evidence for only four WGDs in fungi. The oldest of these occurred ∼100 million years ago (mya) and is shared by ∼60 extant Saccharomycetales species, including the baker’s yeast Saccharomyces cerevisiae. Notably, this is the only known ancient WGD event in the yeast subphylum Saccharomycotina. The dearth of ancient WGD events in fungi remains a mystery. Some studies have suggested that fungal lineages that experience chromosome and genome duplication quickly go extinct, leaving no trace in the genomic record, while others contend that the lack of known WGDs is due to an absence of data. Under the second hypothesis, additional sampling and deeper sequencing of fungal genomes should lead to the discovery of more WGD events. Coupling hundreds of recently published genomes from nearly every described Saccharomycotina species, with three additional long-read assemblies, we discovered three novel WGD events. Although the functions of retained duplicate genes originating from these events are broad, they bear similarities to the well-known WGD that occurred in the Saccharomycetales. In conclusion, our results suggest that WGD may be a more common evolutionary force in fungi than previously believed.

convergent evolution↗
DOE OSTI2020

In vitro prototyping and rapid optimization of biosynthetic enzymes for cell design

The design and optimization of biosynthetic pathways for industrially relevant, non-model organisms is challenging due to transformation idiosyncrasies, reduced numbers of validated genetic parts and a lack of high-throughput workflows. Here we describe a platform for in vitro prototyping and rapid optimization of biosynthetic enzymes (iPROBE) to accelerate this process. In iPROBE, cell lysates are enriched with biosynthetic enzymes by cell-free protein synthesis and then metabolic pathways are assembled in a mix-and-match fashion to assess pathway performance. We demonstrate iPROBE by screening 54 different cell-free pathways for 3-hydroxybutyrate production and optimizing a six-step butanol pathway across 205 permutations using data-driven design. Observing a strong correlation (r = 0.79) between cell-free and cellular performance, we then scaled up our highest-performing pathway, which improved in vivo 3-HB production in Clostridium by 20-fold to 14.63 ± 0.48 g l -1 . Finally, we expect iPROBE to accelerate design–build–test cycles for industrial biotechnology.

36 MATERIALS SCIENCE↗
DOE OSTI2023

Experimental results from the characterization of a 32-channels mixed-signal processor for the GAPS experiment

This work describes the experimental results obtained from the characterization of a 32-channels readout ASIC that is the core of a module composed by 4 Lithium-drifted Silicon, Si(Li), detectors. The module is the building block of a tracker in an upcoming balloon experiment. The activity is carried out within the General AntiParticle Spectrometer (GAPS) international collaboration, whose objective is the indirect detection of dark matter through the detection of antiparticles present in cosmic rays at low energies. The balloon flight is foreseen in 2024 from the McMurdo station in Antarctica. The ASIC is designed in a 180 nm CMOS technology and has 32 low-noise analog readout channels featuring a dynamic compression of the signal, an 11-bit SAR ADC, and a digital back-end section responsible for channel setting and for sending digital information to the data acquisition system of the tracker. This work has a twofold goal: it intends on the one hand to verify the performance of the circuit, on the other to select at least 300 good samples to be used for the assembly of the GAPS Si(Li) tracker.

Riceputi, Elisa↗
DOE OSTI2024

Perform Design Support with MCNP for New Measurements

This report incorporates our work carried out during our 5-month internship at LANL under an internship agreement with EAMEA (École des Applications Militaires de l’Énergie Atomique). After outlining the context in which we worked, we present our work as aid to modeling and predicting the neutronic behavior of nuclear systems, with a view to carrying out criticality experiments qualifying the MCNP code as part of innovative projects. Fourth generation reactors will enable to tackle a lot of issues such as environmental crisis, affordable energy access, and nuclear waste management. They seem to be one of the keys for a sustainable future. Most of the projects that emerge nowadays include the use of HALEU (high assay low enriched uranium) or MOX recycled fuels. Our projects are part of this dynamic and addresses concrete scientific research issues in the nuclear field. Studies of HALEU package are essential to anticipate the need, therefore the Optimus L (OPTImal Modular Universal Shipping cask technology) designed by NAC (Nuclear Assurance Corporation) international but filled with 20 % enriched uranium dioxide (UO 2 ) will be studied to support safe transportation. However, it seems there is no benchmark with a high correlation with the combination of this fuel and this package to validate MCNP simulations. As such, the study will focus on the development of new criticality safety benchmarks for this case. On the other hand, there is a great need for critical benchmarks in the intermediate energy range with MOX fuel. An IER (Integral Experiment Request) has then be requested to answer it through a partnership between French institution IRSN and U.S. Department of Energy's Nuclear Criticality Safety Program (NCSP). This experience planned for 2025 requires to gather calculated data through a MCNP model to be realized safely. Finally, a presentation of our one-week experience at the DAF as part of our discovery of criticality experiments will be introduced in Appendix 1: Week at the DAF (Device Assembly Facility)

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2024

Advances in statistical methods for cancer surveillance research: an age-period-cohort perspective

Background: Analysis of Lexis diagrams (population-based cancer incidence and mortality rates indexed by age group and calendar period) requires specialized statistical methods. However, existing methods have limitations that can now be overcome using new approaches. Methods: We assembled a “toolbox” of novel methods to identify trends and patterns by age group, calendar period, and birth cohort. We evaluated operating characteristics across 152 cancer incidence Lexis diagrams compiled from United States (US) Surveillance, Epidemiology and End Results Program data for 21 leading cancers in men and women in four race and ethnicity groups (the “cancer incidence panel”). Results: Nonparametric singular values adaptive kernel filtration (SIFT) decreased the estimated root mean squared error by 90% across the cancer incidence panel. A novel method for semi-parametric age-period-cohort analysis (SAGE) provided optimally smoothed estimates of age-period-cohort (APC) estimable functions and stabilized estimates of lack-of-fit (LOF). SAGE identified statistically significant birth cohort effects across the entire cancer panel; LOF had little impact. As illustrated for colon cancer, newly developed methods for comparative age-period-cohort analysis can elucidate cancer heterogeneity that would otherwise be difficult or impossible to discern using standard methods. Conclusions: Cancer surveillance researchers can now identify fine-scale temporal signals with unprecedented accuracy and elucidate cancer heterogeneity with unprecedented specificity. Birth cohort effects are ubiquitous modulators of cancer incidence in the US. The novel methods described here can advance cancer surveillance research.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2023

Connector interface assembly for enclosed vessels and associated systems and methods

Systems, methods, and apparatus that employ a connector assembly having a substrate layer with an inner aperture and an outer periphery, and one or more signal traces disposed on the substrate that extend from an inner first location to an outer second location of the apparatus, for communicating data between electronic devices positioned within an interior volume of an enclosed vessel and complementary electronic devices positioned in an ambient environment external to the enclosed vessel. An inner connector is conductively connected the signal traces at the inner first location of each signal trace, and an outer connector is conductively connected to the one or more signal traces at the outer second location of each signal trace. A substantially flat exterior surface extends radially over at least a portion of a region between the respective first locations and the respective second locations.

Estrada, Juan↗
DOE OSTI2022

Hierarchical Materials from High Information Content Macromolecular Building Blocks: Construction, Dynamic Interventions, and Prediction

Hierarchical materials that exhibit order over multiple length scales are ubiquitous in nature. Because hierarchy gives rise to unique properties and functions, many have sought inspiration from nature when designing and fabricating hierarchical matter. More and more, however, nature’s own high-information content building blocks, proteins, peptides, and peptidomimetics, are being coopted to build hierarchy because the information that determines structure, function, and interfacial interactions can be readily encoded in these versatile macromolecules. Here, we take stock of recent progress in the rational design and characterization of hierarchical materials produced from high-information content blocks with a focus on stimuli-responsive and “smart” architectures. We also review advances in the use of computational simulations and data-driven predictions to shed light on how the side chain chemistry and conformational flexibility of macromolecular blocks drive the emergence of order and the acquisition of hierarchy and also on how ionic, solvent, and surface effects influence the outcomes of assembly. Furthermore, continued progress in the above areas will ultimately usher in an era where an understanding of designed interactions, surface effects, and solution conditions can be harnessed to achieve predictive materials synthesis across scale and drive emergent phenomena in the self-assembly and reconfiguration of high-information content building blocks.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗