Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “single population”

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.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 433 records · Page 24
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Modelling and computational improvements to the simulation of single vector-boson plus jet processes for the ATLAS experiment

This paper presents updated Monte Carlo configurations used to model the production of single electroweak vector bosons (W, Z/γ$^{∗}$) in association with jets in proton-proton collisions for the ATLAS experiment at the Large Hadron Collider. Improvements pertaining to the electroweak input scheme, parton-shower splitting kernels and scale-setting scheme are shown for multi-jet merged configurations accurate to next-to-leading order in the strong and electroweak couplings. The computational resources required for these set-ups are assessed, and approximations are introduced resulting in a factor three reduction of the per-event CPU time without affecting the physics modelling performance. Continuous statistical enhancement techniques are introduced by ATLAS in order to populate low cross-section regions of phase space and are shown to match or exceed the generated effective luminosity. This, together with the lower per-event CPU time, results in a 50% reduction in the required computing resources compared to a legacy set-up previously used by the ATLAS collaboration. The set-ups described in this paper will be used for future ATLAS analyses and lay the foundation for the next generation of Monte Carlo predictions for single vector-boson plus jets production.[graphic not available: see fulltext]

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2020

Two-neutron knockout as a probe of the composition of states in Mg 22 , Al 23 , and Si 24

Simpson and Tostevin proposed that the width and shape of exclusive parallel momentum distributions of the A - 2 residue in direct two-nucleon knockout reactions carry a measurable sensitivity to the nucleon single-particle configurations and their couplings within the wave functions of exotic nuclei. We further report here on the first benchmarks and use of this new spectroscopic tool. Exclusive parallel momentum distributions for states in the neutron-deficient nuclei Mg 22 , Al 23 , and Si 24 populated in such direct two-neutron removal reactions were extracted and compared to predictions combining eikonal reaction theory and shell-model calculations. For the well-known Mg 22 and Al 23 nuclei, measurements and calculations were found to agree, supporting the dependence of the parallel momentum distribution width on the angular momentum composition of the shell-model two-neutron amplitudes. In Si 24 , a level at 3439(9) keV, of relevance for the important Al 23 ( p , γ ) Si 24 astrophysical reaction rate, was confirmed to be the 2 2 + state, whereas the 4 1 + state, expected to be strongly populated in two-neutron knockout, was not observed. This puzzle is resolved by theoretical considerations of the Thomas-Ehrman shift, which also indicates that a previously reported 3471-keV state in Si 24 is, in fact, the ( 0 2 + ) level with one of the largest experimental mirror-energy shifts ever observed.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2023

Quantitative differentiation of benign and misfolded glaucoma-causing myocilin variants on the basis of protein thermal stability

Accurate predictions of the pathogenicity of mutations associated with genetic diseases are key to the success of precision medicine. Inherited missense mutations in the myocilin (MYOC) gene, within its olfactomedin (OLF) domain, constitute the strongest genetic link to primary open-angle glaucoma via a toxic gain of function, and thus MYOC is an attractive precision-medicine target. However, not all mutations in MYOC cause glaucoma, and common variants are expected to be neutral polymorphisms. The Genome Aggregation Database (gnomAD) lists ~100 missense variants documented within OLF, all of which are relatively rare (allele frequency <0.001%) and nearly all are of unknown pathogenicity. To distinguish disease-causing OLF variants from benign OLF variants, we first characterized the most prevalent population-based variants using a suite of cellular and biophysical assays, and identified two variants with features of aggregation-prone familial disease variants. Next, we considered all available biochemical and clinical data to demonstrate that pathogenic and benign variants can be differentiated statistically based on a single metric: the thermal stability of OLF. Our results motivate genotyping MYOC in patients for clinical monitoring of this widespread, painless and irreversible ocular disease.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Single-cell RNA-Seq reveals changes in immune landscape in post-traumatic osteoarthritis

Osteoarthritis (OA) is the most common joint disease, affecting over 300 million people world-wide. Accumulating evidence attests to the important roles of the immune system in OA pathogenesis. Understanding the role of various immune cells in joint degeneration or joint repair after injury is vital for improving therapeutic strategies for treating OA. Post-traumatic osteoarthritis (PTOA) develops in ~50% of individuals who have experienced an articular trauma like an anterior cruciate ligament (ACL) rupture. Here, using the high resolution of single-cell RNA sequencing, we delineated the temporal dynamics of immune cell accumulation in the mouse knee joint after ACL rupture. Our study identified multiple immune cell types in the joint including neutrophils, monocytes, macrophages, B cells, T cells, NK cells and dendritic cells. Monocytes and macrophage populations showed the most dramatic changes after injury. Further characterization of monocytes and macrophages reveled 9 major subtypes with unique transcriptomics signatures, including a tissue resident Lyve1 hi Folr2 hi macrophage population and Trem2 hi Fcrls + recruited macrophages, both showing enrichment for phagocytic genes and growth factors such as Igf1 , Pdgfa and Pdgfc. We also identified several genes induced or repressed after ACL injury in a cell type-specific manner. This study provides new insight into PTOA-associated changes in the immune microenvironment and highlights macrophage subtypes that may play a role in joint repair after injury.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2022

The Physical Properties of Low-redshift FeLoBAL Quasars. II. The Rest-frame Optical Emission Line Properties

We report the results of an analysis of the Hβ emission line region of a sample of 30 low-redshift (z < 1) iron low-ionization broad absorption line quasars (FeLoBALQs). Eleven of these objects are newly classified as FeLoBALQs. A matched sample of 132 unabsorbed quasars was analyzed in parallel. The emission lines showed the well-known anticorrelation between the [O III ] and Fe II emission. Using a summary statistic called E1 to quantify this anticorrelation, we found that while the distribution of E1 for the unabsorbed quasars has a single peak, the FeLoBALQs have a bimodal shape in this parameter. Previous studies have shown that the line emission properties of BAL and non-BALQs are consistent; therefore, the difference in the Hβ region emission between FeLoBALQs and unabsorbed quasars is a new result. The two populations of FeLoBALQs are characterized by low and high bolometric luminosities and Eddington ratios. Some previous studies have suggested that BALQs are high accretion rate objects and therefore the discovery of the low accretion rate branch of FeLoBAL quasars was unexpected. We also found that the Hβ FWHM is systematically broader among the FeLoBALQs, implying a higher inclination viewing angle or a dearth of low velocity line emitting gas.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

A quantum trajectory picture of single photon absorption and energy transport in photosystem II

Here, we use quantum trajectory theory to study the dynamics of the first step in photosynthesis for a single photon interacting with photosystem II (PSII). By considering individual trajectories we are able to look beyond the ensemble average dynamics to compute the PSII system evolution conditioned upon individual photon counting measurements. Measurements of the transmitted photon beam strongly affects the system state, since detection of an outgoing photon confirms that the PSII must be in the electronic ground state, while a null measurement implies it is in an excited electronic state. We show that under ideal conditions, observing the null result transforms a state with a low excited state population to a state with nearly all population contained in the excited states. We study the PSII dynamics conditioned on such photon counting for both a pure excitonic model of PSII and a more realistic model with exciton-phonon coupling to a dissipative phononic environment. In the absence of such coupling, we show that the measured fluorescence rates show oscillations constituting a photon-counting witness of excitonic coherence. Excitonic coupling to the phonon environment has a strong effect on the observed rates of fluorescence, damping the oscillations. Addition of non-radiative decay and incoherent transitions to radical pair states in the reaction center to the phononic model allows extraction of a quantum efficiency of 92.5% from the long-time evolution, consistent with bulk experimental measurements.

Coherent states↗
DOE OSTI2024

Distribution of centrality measures on undirected random networks via the cavity method

The Katz centrality of a node in a complex network is a measure of the node’s importance as far as the flow of information across the network is concerned. For ensembles of locally tree-like undirected random graphs, this observable is a random variable. Its full probability distribution is of interest but difficult to handle analytically because of its “global” character and its definition in terms of a matrix inverse. Leveraging a fast Gaussian Belief Propagation-Cavity algorithm to solve linear systems on tree-like structures, we show that i) the Katz centrality of a single instance can be computed recursively in a very fast way, and ii) the probability P ( K ) that a random node in the ensemble of undirected random graphs has centrality K satisfies a set of recursive distributional equations, which can be analytically characterized and efficiently solved using a population dynamics algorithm. We test our solution on ensembles of Erdős-Rényi and Scale Free networks in the locally tree-like regime, with excellent agreement. The analytical distribution of centrality for the configuration model conditioned on the degree of each node can be employed as a benchmark to identify nodes of empirical networks with over- and underexpressed centrality relative to a null baseline. We also provide an approximate formula based on a rank- 1 projection that works well if the network is not too sparse, and we argue that an extension of our method could be efficiently extended to tackle analytical distributions of other centrality measures such as PageRank for directed networks in a transparent and user-friendly way.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2022

A Chromosome-Scale Genome Assembly of a Helicoverpa zea Strain Resistant to Bacillus thuringiensis Cry1Ac Insecticidal Protein

Helicoverpa zea (Lepidoptera: Noctuidae) is an insect pest of major cultivated crops in North and South America. The species has adapted to different host plants and developed resistance to several insecticidal agents, including Bacillus thuringiensis (Bt) insecticidal proteins in transgenic cotton and maize. Helicoverpa zea populations persist year-round in tropical and subtropical regions, but seasonal migrations into temperate zones increase the geographic range of associated crop damage. To better understand the genetic basis of these physiological and ecological characteristics, we generated a high-quality chromosome-level assembly for a single H. zea male from Bt-resistant strain, HzStark_Cry1AcR. Hi-C data were used to scaffold an initial 375.2 Mb contig assembly into 30 autosomes and the Z sex chromosome (scaffold N50 = 12.8 Mb and L50 = 14). The scaffolded assembly was error-corrected with a novel pipeline, polishCLR. The mitochondrial genome was assembled through an improved pipeline and annotated. Assessment of this genome assembly indicated 98.8% of the Lepidopteran Benchmark Universal Single-Copy Ortholog set were complete (98.5% as complete single copy). Repetitive elements comprised approximately 29.5% of the assembly with the plurality (11.2%) classified as retroelements. This chromosome-scale reference assembly for H. zea, ilHelZeax1.1, will facilitate future research to evaluate and enhance sustainable crop production practices.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Metatranscriptomic dynamics after Verticillium dahliae infection and root damage in Olea europaea

Background: The olive tree is of particular economic interest in the Mediterranean basin. Researchers have conducted several studies on one of the most devastating disorders affecting this tree, the Verticillium wilt, which causes substantial economic losses in numerous areas. We analyzed metatranscriptomic samples taken from a previous study conducted on leaves and roots of Olea europaea that were infected with Verticillium dahliae. In addition, we also analyzed mechanically damaged roots. The aim of our approach is to describe the dynamics of the root microbiome after severe perturbations. Results: Our results not only describe the dynamics of the microbial community associated with the disturbance, but also show the high complexity of these systems and explain how this can lead to a conflicting assignment of the various types of parasitism observed in a specific organism. Conclusions: Our findings indicate that this infection, although led by Verticillium, is driven not by a single species, but by a polymicrobial consortium that also includes natural endophytes of the olive tree. This community contains both biotrophic and necrotrophic organisms that alternate and live together during the infection. In addition, opportunistic organisms appear that take profit not from plant tissues, but from new emerging populations of microorganisms. Therefore, this system can be described as a complex biological system composed of different interacting communities. Notably, our work has important considerations when it comes to classifying the type of parasitism of a given species.

Verticillium dahliae↗
DOE OSTI2026

2011 Seattle Tolling Impact Survey

The 2011 Tolling Impact Survey measured the impact of tolling on travel behavior in Seattle, Washington. The Volpe Center conducted the survey on behalf of the U.S. Department of Transportation and the Urban Partnership Agreement. The population surveyed included drivers, public transportation users, carpoolers, and vanpoolers using the SR-520 corridor in Seattle. The survey was conducted in two phases—before and after toll implementation—to evaluate related attitude changes. The survey assessed route changes, trip timing, trip purpose, and travel mode (i.e., single-occupancy vehicle, carpool, or public transportation).

1Hz data↗
DOE OSTI2023

Concurrent colonization of rodent kidneys with multiple species and serogroups of pathogenic Leptospira

ABSTRACT Rodents are important reservoir hosts of pathogenic leptospires in the US Virgin Islands. Our previous work determined that trapped rodents were colonized withLeptospira borgpeterseniiserogroup Ballum (n= 48) and/orLeptospira kirschneriserogroup Icterohaemorrhagiae (n= 3). In addition, nine rodents appeared to be colonized with a mixed population comprising more than one species/serogroup. The aim of this study was to validate this finding by characterizing clonal isolates derived from cultures of mixed species. Cultures of presumptive mixed species (designated LR1, LR5, LR37, LR57, LR60, LR61, LR68, LR70, and LR72) were propagated in different media including Hornsby-Alt-Nally (HAN) media, incubated at both 29℃ and 37℃, and T80/40/LH incubated at 29℃. Polyclonal reference antisera specific for serogroup Ballum and Icterohaemorrhagiae were used to enrich for different serogroups followed by subculture on agar plates. Individual colonies were then selected for genotyping and serotyping. Of the nine cultures of mixed species/serogroups, a single clonal isolate was separated in five of them:L. borgpeterseniiserogroup Ballum in LR1, LR5, and LR37, andL. kirschneriserogroup Icterohaemorrhagiae in LR60 and LR72. In four of the cultures with mixed species (LR57, LR61, LR68, and LR70), clonal isolates of bothL. borgpeterseniiserogroup Ballum andL. kirschneriserogroup Icterohaemorrhagiae were recovered. Our results definitively establish that rodents can be colonized with more than one species/serogroup ofLeptospiraconcurrently. The identification and characterization of multiple species/serogroups ofLeptospirafrom individual reservoir hosts of infection are essential to understand the epidemiology and transmission of disease to both human and domestic animal populations. IMPORTANCE PathogenicLeptospira, the causative agent of human and animal leptospirosis, comprise a diverse genus of species/serogroups which are inherently difficult to isolate from mammalian hosts due to fastidious growth requirements. Molecular evidence has indicated that reservoir hosts ofLeptospiramay shed multiple species concurrently. However, evidence of this phenomena by culture has been lacking. Culture is definitive and is essential for comprehensive characterization of recovered isolates by high-resolution genome sequencing and serotyping. In this work, a protocol using recently developed novel media formulations, in conjunction with reference antisera, was developed and validated to demonstrate the recovery of multiple species/serogroups of pathogenicLeptospirafrom the same host. The identification and characterization of multiple species/serogroups ofLeptospirafrom individual reservoir hosts of infection are essential to understand the epidemiology and transmission of disease to both human and domestic animal populations.

Biotechnology & Applied Microbiology↗
DOE OSTI2020

The impact of behavioral and geographic heterogeneity on residential-sector carbon abatement costs

Analyses of monetary and emissions savings from residential efficiency upgrades usually neglect behavioral differences between consumers. Variations in behavior are frequently large: 13% of the U.S. population sets thermostats for cooling at 20 °C (68 °F) or lower and 15% at 25.5 °C (78 °F) or higher. Efficiency analyses should account for behavioral heterogeneity as well as variations in climate and housing characteristics. We model energy and economic savings of efficiency upgrades for U.S. single-family detached houses, accounting for differences in thermostat settings, climate zone, fuel prices, and home characteristics. We consider five efficiency interventions: wall insulation, attic insulation, air sealing, high-efficiency furnaces, and high-efficiency air conditioners. Energy and economic savings vary widely by consumer; the average net present value for wall insulation is $3,020 United States Dollar (USD), but considering heterogeneity, it has a 10th percentile value of -$231 and 90th percentile value of $5,000. Neglecting heterogeneity, technology upgrades can be prioritized from lower to higher carbon abatement costs: air conditioners, wall insulation, furnace, air sealing, and attic insulation. Accounting for heterogeneity reorders this prioritization, and consumer-specific conditions affect mitigation costs such that technologies are mixed in with one another and are no longer arranged one after another. These results indicate that interventions to improve efficiency should consider differences between consumers.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2023

Recombination smooths the time-signal disrupted by latency in within-host HIV phylogenies

Within-host HIV evolution involves several features that may disrupt standard phylogenetic reconstruction. One important feature is re-activation of latently integrated provirus, which has the potential to disrupt the temporal signal, leading to variation in the branch lengths and apparent evolutionary rates in a tree. Yet, real within-host HIV phylogenies tend to show clear, ladder-like trees structured by the time of sampling. Another important feature is recombination, which violates the fundamental assumption that evolutionary history can be represented by a single bifurcating tree. Thus, recombination complicates the within-host HIV dynamic by mixing genomes and creating evolutionary loop structures that cannot be represented in bifurcating trees. In this paper, we develop a coalescent-based simulator of within-host HIV evolution that includes latency, recombination, and effective population size dynamics that allows us to study the relationship between the true, complex genealogy of within-host HIV evolution, encoded as an Ancestral Recombination Graph (ARG), and the observed phylogenetic tree. To compare our ARG results to the familiar phylogeny format, we calculate the expected bifurcating tree after decomposing the ARG into all unique site trees, their combined distance matrix, and the overall corresponding bifurcating tree. While latency and recombination separately disrupt the phylogenetic signal, remarkably, we find that recombination recovers the temporal signal of within-host HIV evolution caused by latency by mixing fragments of old, latent genomes into the contemporary population. In effect, recombination averages over extant heterogeneity, whether it stems from mixed time-signals or population bottlenecks. Further, we establish that the signals of latency and recombination can be observed in phylogenetic trees despite being an incorrect representation of the true evolutionary history. Using an Approximate Bayesian Computation method, we develop a set of statistical probes to tune our simulation model to nine longitudinally-sampled within-host HIV phylogenies. Because ARGs are exceedingly difficult to infer from real HIV data, our simulation system allows investigating effects of latency, recombination, and population size bottlenecks by matching decomposed ARGs to real data as observed in standard phylogenies.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Clustering and runaway merging in a primordial black hole dominated universe

If primordial black holes (PBHs) are present in the early Universe, their contribution to the energy budget grows relative to that of radiation and generically becomes dominant unless the initial abundance is exponentially small. This black hole domination scenario is largely unconstrained for PBHs with masses ≲ 10 9 g, which evaporate prior to big bang nucleosynthesis. However, if the era of PBH domination is sufficiently long, the PBHs form clusters and can merge appreciably within these objects. We calculate the population statistics of these clusters within the Press-Schechter formalism and find that, for a wide range of PBH masses and Hubble rates at the onset of PBH domination, the mergers within PBH clusters can exhibit runaway behavior, where the majority of the cluster will eventually form a single black hole with a mass much greater than the original PBH mass. Finally, these mergers can dramatically alter the PBH mass distribution and leave behind merged relic black holes that evaporate after big bang nucleosynthesis and yield various observational signatures, excluding parameter choices previously thought to be viable.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2026

2011 Atlanta Tolling Impact Survey

The 2011 Tolling Impact Survey measured the impact of tolling on travel behavior in Atlanta, Georgia. The Volpe Center conducted the survey on behalf of the U.S. Department of Transportation and the Urban Partnership Agreement. The population surveyed included drivers, public transportation users, carpoolers, and vanpoolers using the I-85 corridor in Atlanta, Georgia. The survey was conducted in two phases—before and after toll implementation—to evaluate related attitude changes. The survey assessed route changes, trip timing, trip purpose, and travel mode (i.e., single-occupancy vehicle, carpool, or public transportation).

1Hz data↗
DOE OSTI2023

Design and Development of a High Fidelity Cyber-Physical Testbed

In order to ensure that future critical infrastructure systems are resilient to various types of such advanced and persistent threats, it is important to develop and integrate tailored solutions that holistically address cyber-attack detection and mitigation in a timely manner such that adverse system impacts that impact a large population are avoided. Further, it is essential to create environments that allow control, protection and communication to exist within a realistic environment to analyze the effects of adverse conditions and system operating modes. This project aims to establish a high-fidelity testbed environment for modeling and simulating a single microgrid all the way up to a network of microgrids along with baseline controls, protection, and associated cyber communication. This is an important activity because accurately modeling and simulating the various power-electronics-based DERs and loads in a microgrid is critical to adequately capturing their behaviors over a wide range of off-normal conditions, as well as to evaluate the resilience of the system using the developed controls. The work presented in this report focuses on the process of building this high-fidelity testbed and the associated experimentation it enables. The model enables the creation of high-fidelity use cases and associated datasets that have been used extensively within the initiative to study resilience and support novel control development and prototyping. The work heavily leverages existing capability that is part of the high-fidelity cyber-physical system experimentation lab to create a power hardware-in-the-loop setup. The report also details the creation of an automated model building platform that can enable high-fidelity real-time models to be built without much effort allowing existing low-fidelity models to be analyzed in higher fidelity. Lastly, the report also discusses efforts center around scaling to large complex power system models to make the experimentation more effective.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Exploring the Mass-loss Histories of the Red Supergiants

We report mid- to far-infrared imaging and photometry from 7 to 37 μm with SOFIA/FORCAST and 2 μm adaptive optics imaging with LBTI/LMIRCam of a large sample of red supergiants (RSGs) in four Galactic clusters: RSGC1, RSGC2 = Stephenson 2, RSGC3, and NGC 7419. The RSGs in these clusters cover their expected range in luminosity and initial mass from ≈9 to more than 25 M {sub ⊙}. The population includes examples of very late-type RSGs such as MY Cep, which may be near the end of the RSG stage, high-mass-losing maser sources, yellow hypergiants, and post-RSG candidates. Many of the stars and almost all of the most luminous have spectral energy distributions (SEDs) with extended infrared excess radiation at the longest wavelengths. To best model their SEDs, we use the DUSTY code with a variable radial density distribution function to estimate their mass-loss rates. Our M-dot –luminosity relation for 42 RSGs basically follows the classical de Jager curve, but at luminosities below 10{sup 5} L{sub ⊙}, we find a significant population of RSGs with M-dot below the de Jager relation. At luminosities above 10{sup 5} L {sub ⊙}, there is a rapid transition to higher mass-loss rates that approximates and overlaps the de Jager curve. We recommend that instead of using a linear relation or single curve, the empirical M-dot –luminosity relation is better represented by a broad band. Interestingly, the transition to much higher M-dot at about 10{sup 5} L {sub ⊙} corresponds approximately to an initial mass of 18–20 M {sub ⊙}, which is close to the upper limit for RSGs becoming Type II supernovae.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

The single-cell transcriptome program of nodule development cellular lineages in Medicago truncatula

Legumes establish a symbiotic relationship with nitrogen-fixing rhizobia by developing nodules. Nodules are modified lateral roots that undergo changes in their cellular development in response to bacteria, but the transcriptional reprogramming that occurs in these root cells remains largely uncharacterized. Here, we describe the cell-type-specific transcriptome response of Medicago truncatula roots to rhizobia during early nodule development in the wild-type genotype Jemalong A17, complemented with a hypernodulating mutant (sunn-4) to expand the cell population responding to infection and subsequent biological inferences. The analysis identifies epidermal root hair and stele sub-cell types associated with a symbiotic response to infection and regulation of nodule proliferation. Trajectory inference shows cortex-derived cell lineages differentiating to form the nodule primordia and, posteriorly, its meristem, while modulating the regulation of phytohormone-related genes. Gene regulatory analysis of the cell transcriptomes identifies new regulators of nodulation, including STYLISH 4, for which the function is validated.

Cell Biology↗