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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 217 records · Page 12
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

RF-Net 2: fast inference of virus reassortment and hybridization networks

Abstract Motivation A phylogenetic network is a powerful model to represent entangled evolutionary histories with both divergent (speciation) and convergent (e.g. hybridization, reassortment, recombination) evolution. The standard approach to inference of hybridization networks is to (i) reconstruct rooted gene trees and (ii) leverage gene tree discordance for network inference. Recently, we introduced a method called RF-Net for accurate inference of virus reassortment and hybridization networks from input gene trees in the presence of errors commonly found in phylogenetic trees. While RF-Net demonstrated the ability to accurately infer networks with up to four reticulations from erroneous input gene trees, its application was limited by the number of reticulations it could handle in a reasonable amount of time. This limitation is particularly restrictive in the inference of the evolutionary history of segmented RNA viruses such as influenza A virus (IAV), where reassortment is one of the major mechanisms shaping the evolution of these pathogens. Results Here, we expand the functionality of RF-Net that makes it significantly more applicable in practice. Crucially, we introduce a fast extension to RF-Net, called Fast-RF-Net, that can handle large numbers of reticulations without sacrificing accuracy. In addition, we develop automatic stopping criteria to select the appropriate number of reticulations heuristically and implement a feature for RF-Net to output error-corrected input gene trees. We then conduct a comprehensive study of the original method and its novel extensions and confirm their efficacy in practice using extensive simulation and empirical IAV evolutionary analyses. Availability and implementation RF-Net 2 is available at https://github.com/flu-crew/rf-net-2. Supplementary information Supplementary data are available at Bioinformatics online.

Markin, Alexey (ORCID:0000000332809050)↗
NASA NTRS2007

Long-range Transport of Asian Dust Storms: A Satellite/Surface Perspective on Societal and Scientific Influence

Among the many components contributing to air pollution, airborne mineral dust plays an important role due to its biogeochemical impact on the ecosystem and its radiative forcing effect on the weather/climate system. As much as one-third to half of the global dust emissions, estimated about 800 Tg, are introduced annually into Earth's atmosphere from various deserts in China. Asian dust storm outbreaks are believed to have persisted for hundreds and thousands years over the vast territory of north and northwest China, but not until recent decades that many studies reveal the compelling evidence in recognizing the importance of these eolian dust particles for forming Chinese Loess Plateau and for biogeochemical cycling in the North Pacific Ocean to as far as in the Greenland ice-sheets through long-range transport. The Asian dust and air pollution aerosols can be detected by its colored appearance on current Earth observing satellites and its evolution monitored by satellite and surface network. In this paper, we will demonstrate the capability of a new satellite algorithm, called Deep Blue, to retrieve aerosol properties, particularly but not limited to, over bright-reflecting surfaces such as urban areas and deserts. Recently, many field campaigns were designed and executed to study the compelling variability in spatial and temporal scale of both pollution-derived and naturally occurring aerosols, which often exist in high concentrations over eastern Asia and along the rim of the western Pacific. We will provide an overview of the outbreak of Asian dust storms, near source/sink and their evolution along transport pathway, from space and surface observations. The climatic effects and societal impacts of the Asian dusts will be addressed in depth. (to be presented in the International Workshop on Semi-Arid Land Surface-

Source record↗
DOE OSTI2023

A conserved gene regulatory network controls root epidermal cell patterning in superrosid species

Summary In superrosid species, root epidermal cells differentiate into root hair cells and nonhair cells. In some superrosids, the root hair cells and nonhair cells are distributed randomly (Type I pattern), and in others, they are arranged in a position‐dependent manner (Type III pattern). The model plant Arabidopsis ( Arabidopsis thaliana ) adopts the Type III pattern, and the gene regulatory network (GRN) that controls this pattern has been defined. However, it is unclear whether the Type III pattern in other species is controlled by a similar GRN as in Arabidopsis, and it is not known how the different patterns evolved. In this study, we analyzed superrosid species Rhodiola rosea , Boehmeria nivea , and Cucumis sativus for their root epidermal cell patterns. Combining phylogenetics, transcriptomics, and cross‐species complementation, we analyzed homologs of the Arabidopsis patterning genes from these species. We identified R. rosea and B. nivea as Type III species and C. sativus as Type I species. We discovered substantial similarities in structure, expression, and function of Arabidopsis patterning gene homologs in R. rosea and B. nivea , and major changes in C. sativus . We propose that in superrosids, diverse Type III species inherited the patterning GRN from a common ancestor, whereas Type I species arose by mutations in multiple lineages.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Porosity evolution under increasing tension in wire-arc additively manufactured aluminum using in-situ micro-computed tomography and convolutional neural network

Internal defects such as porosities are often formed in additively manufactured metal components. The pores nucleate, grow, and coalesce to form cracks under loads, leading to eventual catastrophic failure. Here, in this paper, the full-field porosity evolution, including pore growth and coalescence in a wire-arc additively manufactured (WAAM) aluminum alloy cylinder under tension is observed with in-situ X-ray micro-computed tomography (μCT). The pore size distribution, density, and tensile stress are calculated from the volumetric images analyzed by a convolutional neural network (CNN) algorithm, which provides rapid analysis of 12,950 slice images from μCT volumetric images at the reference state and 13 tensile strains. The results show the quantitative evolution of the growth and coalescence of macropores under tension. A strong correlation is found between the local pore volume fraction and the true tensile stress when the tensile strain is larger than 5%.

36 MATERIALS SCIENCE↗
DOE OSTI2023

Predicting ecosystem metaphenome from community metagenome: A grand challenge for environmental biology

Abstract Elucidating how an organism's characteristics emerge from its DNA sequence has been one of the great triumphs of biology. This triumph has cumulated in sophisticated computational models that successfully predict how an organism's detailed phenotype emerges from its specific genotype. Inspired by that effort's vision and empowered by its methodologies, a grand challenge is described here that aims to predict the biotic characteristics of an ecosystem, its metaphenome, from nucleic acid sequences of all the species in its community, its metagenome. Meeting this challenge would integrate rapidly advancing abilities of environmental nucleic acids (eDNA and eRNA) to identify organisms, their ecological interactions, and their evolutionary relationships with advances in mechanistic models of complex ecosystems. Addressing the challenge would help integrate ecology and evolutionary biology into a more unified and successfully predictive science that can better help describe and manage ecosystems and the services they provide to humanity.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Benchmarking structural evolution methods for training of machine learned interatomic potentials

When creating training data for machine-learned interatomic potentials (MLIPs), it is common to create initial structures and evolve them using molecular dynamics (MD) to sample a larger configuration space. Here, we benchmark two other modalities of evolving structures, contour exploration (CE) and dimer-method (DM) searches against MD for their ability to produce diverse and robust density functional theory training data sets for MLIPs. We also discuss the generation of initial structures which are either from known structures or from random structures in detail to further formalize the structure-sourcing processes in the future. The polymorph-rich zirconium-oxygen composition space is used as a rigorous benchmark system for comparing the performance of MLIPs trained on structures generated from these structural evolution methods. Using Behler–Parrinello neural networks as our MLIP models, we find that CE and the DM searches are generally superior to MD in terms of spatial descriptor diversity and statistical accuracy.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2020

Transient Coupled Chemical-Thermal-Fluid Field Simulation for Sealed Aluminum-clad Spent Nuclear Fuel Storage Canister

As the first step toward developing three-dimensional (3D) multi-physics computational fluid dynamics (CFD) model for unsealed and vented canister storage system, a 3D CFD model coupled with bulk gas radiolysis reactions was developed first for sealed DOE standard canisters filled with inert gas and trace amount of air and water. The workflow for constructing canister-scale 3D CFD models and coupling with gas phase radiolysis reactions were established, which can be readily extended to unsealed, vented canister storage system. This interim milestone report documents the theory of the model, workflow to establish radiolysis reaction network, and initial simulations of the evolutions of thermal fields and hydrogen gas concentrations within sealed DOE standard canisters over long period of time. In addition, a mesh refinement test was done to show that increasing the models mesh refinement had negligible impact upon the temperature profiles.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2022

DeepCare: Improving Patient Care using Deep Learning on Electronic Health Records

Coordinating patient care using electronic health records (EHR) data presents an exciting but formidable opportunity in data extraction, analysis and modeling. Traditional methods use a manual feature driven approach to model patients with age, family history and symptoms to predict disease outcomes. We propose a novel approach to model patients based on their streaming electronic health records data combined with information from medical knowledge bases, which has been gained over years of medical research. Using a combination of representation learning and long short term memory (LSTM) networks we plan to model patient evolution over time, leading to more accurate and individualized predictive models for patient’s diseases. Our approach will be transformative in providing critical decision support for patient care, enabling accurate understanding and evolution of diseases in patients.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2025

Multimessengers from the Radioactive Decay of r -process Nuclei

The radioactive β-decay of nuclei synthesized in the rapid neutron capture process (r-process) releases a variety of particles, including electrons, γ-rays, neutrinos, and neutrons. These particles provide a rich set of multimessenger signals that carry information about the astrophysical environments where neutron-rich nucleosynthesis occurs. In this work, we calculate from first principles the emission spectra resulting from the β-decay of r-process nuclei. Our approach incorporates detailed nuclear structure and decay data to model the energy distributions of each particle species. We couple the spectra with a nuclear reaction network simulation to obtain the temporal evolution of these distributions. We find that the emission distributions vary significantly in time and are nonthermal, with substantial average energies. We investigate these nuclear signals as a direct probe of heavy element formation and show that they are complementary observables to kilonova.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

PDnetwork

PDnetwork is an interactive online tool designed to visualize the evolution of the co-authorship network in the field of peridynamics. In this network, each node represents a peridynamics author, and each link represents co-authorship between authors. The tool allows users to obtain collaborative measures for authors using selected network metrics and visualize collaborations for specific authors. Additionally, it provides rankings for authors based on selected collaboration metrics and includes links to the author profiles in the Scopus publication database.

Dahal, Biraj [Georgia Institute of Technology, Atl↗
NASA NTRS1983

Data systems - Optical bus will connect distributed system

The fiber optics buses currently under consideration for the NASA space station program will have data rates of at least 20 Mb/sec. The network interconnection scheme that will eventually be used is, however, uncertain. A NASA-Langley effort on graph networks includes adaptive, fault-tolerant and self-correcting operations. A breadboard program at NASA-Johnson includes evaluations of standard devices, called 'bus interface units', in an adaptive and fault-correcting chordal or concentric ring type of network. Fiber optics would allow an evolution to wavelength modulation techniques in such systems.

Swingle, W. L.↗
NASA NTRS1989

Two-point correlation function of cosmic-string loops

The two-point correlations of cosmic-string loops are studied with numerical simulations of the evolution of a cosmic-string network in an expanding universe. It is found that the initial positions of loops that are chopped off the network have a correlation function that is quite similar to the highest estimates of the Abell-cluster correlation function, but these correlations are rapidly washed out by the motion of the loops. The implications for the cosmic-string galaxy-formation scenario are briefly discussed.

Bennett, David P.↗
NASA NTRS2003

The East and Southeast Asia Initiatives: Aerosol Column Measurements

Airborne dusts from northern China contribute a significant part of the air quality problem and, to some extent, regional climatic impact in Asia during spring- time. However, with the economical growth in China, increases in the emission of air pollutants generated from industrial and vehicular sources will not only impact the radiation balance, but adverse health effects to humans all year round. In addition, both of these dust and air pollution clouds can transport swiftly across the Pacific reaching North America within a few days, possessing an even larger scale effect. The Asian dust and air pollution aerosols can be detected by its colored appearance on current Earth observing satellites (e.g., MODIS, SeaWiFS, TOMS, etc.) and its evolution monitored by satellites and surface network. Biomass burning has been a regular practice for land clearing and land conversion in many countries, especially those in Africa, South America, and Southeast Asia. However, the unique climatology of Southeast Asia is very different than that of Africa and South America, such that large-scale biomass burning causes smoke to interact extensively with clouds during the peak-burning season of March to April. Significant global sources of greenhouse gases (e.g., CO2, CH4), chemically active gases (e.g., NO, CO, HC, CH3,Br), and atmospheric aerosols are produced by biomass burning processes. These gases influence the Earth- atmosphere system, impacting both global climate and tropospheric chemistry. Some aerosols can serve as cloud condensation nuclei, which play an important role in determining cloud lifetime and precipitation, hence, altering the earth's radiation and water budget. Biomass burning also affects the biogeochemical cycling of nitrogen and carbon compounds from the soil to the atmosphere; the hydrological cycle (i.e., run off and evaporation); land surface reflectivity and emissivity; as well as ecosystem biodiversity and stability. Two new initiatives, EAST-AIRE (East Asian Study of Tropospheric Aerosols: an International Regional Experiment) and BASE-ASIA (Biomass-burning Aerosols in South East-Asia: Smoke Impact Assessment) will be presented and discussed their contribution to better understand the impacts of aerosols on regional-to- global climate, hydrological and carbon cycles, and tropospheric chemistry.

Tsay, Si-Chee↗
NASA NTRS2004

Dust, Pollution, and Biomass Burning Aerosols in Asian Pacific: A Column Satellite-Surface Perspective

Airborne dusts from northern China contribute a significant part of the air quality problem and, to some extent, regional climatic impact in Asia during spring-time. However, with the economical growth in China, increases in the emission of air pollutants generated from industrial and vehicular sources will not only impact the radiation balance, but adverse health effects to humans all year round. In addition, both of these dust and air pollution clouds can transport swiftly across the Pacific reaching North America within a few days, possessing an even larger scale effect. The Asian dust and air pollution aerosols can be detected by its colored appearance on current Earth observing satellites (e.g., MODIS, SeaWiFS, TOMS, etc.) and its evolution monitored by satellites and surface network. Biomass burning has been a regular practice for land clearing and land conversion in many countries, especially those in Africa, South America, and Southeast Asia. However, the unique climatology of Southeast Asia is very different than that of Africa and South America, such that large-scale biomass burning causes smoke to interact extensively with clouds during the peak-burning season of March to April. Significant global sources of greenhouse gases (e.g., CO2, CH4), chemically active gases (e.g., NO, CO, HC, CH3Br), and atmospheric aerosols are produced by biomass burning processes. These gases influence the Earth-atmosphere system, impacting both global climate and tropospheric chemistry. Some aerosols can serve as cloud condensation nuclei, which play an important role in determining cloud lifetime and precipitation, hence, altering the earth's radiation and water budget. Biomass burning also affects the biogeochemical cycling of nitrogen and carbon compounds from the soil to the atmosphere; the hydrological cycle (i.e., run off and evaporation); land surface reflectivity and emissivity; as well as ecosystem biodiversity and stability. Two new initiatives, EAST-AIRE (East Asian Study of Tropospheric Aerosols: an International Regional Experiment) and BASE-ASIA (Biomass-burning Aerosols in South East-Asia: Smoke Impact Assessment) will be presented and discussed their contribution to better understand the impacts of aerosols on regional-to-global climate, hydrological and carbon cycles, and tropospheric chemistry.

Tsay, Si-Chee↗
NASA NTRS2006

Asian Dust Storm Outbreaks: A Satellite-Surface Perspective

Airborne dusts from northern China contribute a significant part of the air quality problem and, to some extent, regional climatic impact in Asia during springtime. Asian dust typically originates in desert areas far from polluted urban regions. During the transport, dust layers can interact with anthropogenic sulfate and soot aerosols from heavily polluted urban areas. Added to the complex effects of clouds and natural marine aerosols, dust particles reaching the marine environment can have drastically different properties than those from the source. Thus, understanding the unique temporal and spatial variations of Asian dust is of special importance in regional-to-global climate issues (e.g., radiative forcing, hydrological cycle, and primary biological productivity in the mid-Pacific Ocean, etc.), as well as societal concerns (e.g., adverse health effects to humans). The Asian dust and air pollution aerosols can be detected by its colored appearance on current Earth observing satellites (e.g., MODIS, SeaWiFS, TOMS, etc.) and its evolution monitored by satellites and surface network (e.g. AERONET, SKY NET, MPLNET, etc.). Recently, many field campaigns (e.g., ACE-Asia-2001, TRACEP-2001, ADE-2002 & -2003, APEX-2001 & -2003, etc.) were designed and executed to study the compelling variability in spatial and temporal scale of both pollution-derived and naturally occurring aerosols, which often exist in high concentrations over eastern Asia and along the rim of the western Pacific. I will present an overview of the outbreak of Asian dust storms from space and surface observations and to address the climatic effects and societal impacts.

Tsay, Si-Chee↗
NASA NTRS2020

Intercomparison of surface meltwater routing models for the Greenland ice sheet and influence on subglacial effective pressures

Each summer, large volumes of surface meltwater drain off the Greenland ice sheet (GrIS) surface through moulins to the bed, impacting subglacial hydrology and ice flow dynamics. Supraglacial surface routing delays may propagate to englacial and subglacial hydrologic systems, requiring accurate assessment to correctly estimate subglacial effective pressures. We compare hourly supraglacial moulin discharge simulations from three surface meltwater routing models – the synthetic unit hydrograph (SUH), the bare-ice component of surface routing and lake filling (SRLF), and the rescaled width function (RWF) – for four internally drained catchments on the southwestern Greenland ice sheet surface. The routing models are forced identically using surface runoff from the Modèle Atmosphérique Régionale regional climate model (RCM). For each catchment, simulated moulin hydrographs are input to the SHAKTI subglacial hydrologic model to simulate diurnally varying subglacial effective-pressure variations in the vicinity of a single moulin. Overall, all three routing models produce more realistic moulin discharges than simply using RCM runoff outputs without surface routing but produce significant differences in peak moulin discharge and time to peak. In particular, the RWF yields later, smaller peak moulin discharges than the SUH or SRLF due to its representation of slow interfluve flow between supraglacial meltwater channels, and it can readily accommodate the seasonal evolution of supraglacial stream and river networks. Differences among the three routing models are reflected in a series of simple idealized subglacial hydrology simulations that yield different diurnal effective-pressure amplitudes; however, the supraglacial hydrologic system acts as short-term storage for surface meltwater, and the temporal mean effective pressure is relatively consistent across routing models.

Kang Yang↗