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At least 55 records · Page 3
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Combining biomarker and virus phylogenetic models improves HIV-1 epidemiological source identification

To identify and stop active HIV transmission chains new epidemiological techniques are needed. Here, we describe the development of a multi-biomarker augmentation to phylogenetic inference of the underlying transmission history in a local population. HIV biomarkers are measurable biological quantities that have some relationship to the amount of time someone has been infected with HIV. To train our model, we used five biomarkers based on real data from serological assays, HIV sequence data, and target cell counts in longitudinally followed, untreated patients with known infection times. The biomarkers were modeled with a mixed effects framework to allow for patient specific variation and general trends, and fit to patient data using Markov Chain Monte Carlo (MCMC) methods. Subsequently, the density of the unobserved infection time conditional on observed biomarkers were obtained by integrating out the random effects from the model fit. This probabilistic information about infection times was incorporated into the likelihood function for the transmission history and phylogenetic tree reconstruction, informed by the HIV sequence data. To critically test our methodology, we developed a coalescent-based simulation framework that generates phylogenies and biomarkers given a specific or general transmission history. Testing on many epidemiological scenarios showed that biomarker augmented phylogenetics can reach 90% accuracy under idealized situations. Under realistic within-host HIV-1 evolution, involving substantial within-host diversification and frequent transmission of multiple lineages, the average accuracy was at about 50% in transmission clusters involving 5–50 hosts. Realistic biomarker data added on average 16 percentage points over using the phylogeny alone. Using more biomarkers improved the performance. Shorter temporal spacing between transmission events and increased transmission heterogeneity reduced reconstruction accuracy, but larger clusters were not harder to get right. More sequence data per infected host also improved accuracy. We show that the method is robust to incomplete sampling and that adding biomarkers improves reconstructions of real HIV-1 transmission histories. The technology presented here could allow for better prevention programs by providing data for locally informed and tailored strategies.

60 APPLIED LIFE SCIENCES↗
NASA NTRS1983

Documentation for the machine-readable version of A Catalogue of Extragalactic Radio Source Identifications (Veron-Cetty and Veron 1983)

Detailed descriptions of the data and reference files of the updated and final version of the machine-readable catalog are given. The computerized catalog has greatly expanded since the original published version (1974), and additional information is given. A separate reference file contains bibliographical citations ordered simultaneously by numerical reference and alphabetically by author.

Warren, W. H., Jr.↗
NASA NTRSDate not supplied

Physics Informed Broadband Noise Source Identification and Prediction of an Ideally Twisted Rotor

This work aims at a physics based approach for the prediction and isolation of broadband noise emanating from different regions of an ideally twisted rotor. A preliminary prediction was conducted using a lattice-Boltzmann method–very-large-eddy simulation (LBM-VLES) implemented within the software suite, PowerFLOW. Regions of particular interest to broadband noise were investigated by calculating one-third octave sound pressure levels of the unsteady pressure fluctuations acting on the rotor. These regions were then isolated and treated as individual Ffowcs Williams-Hawkings (FW-H) surfaces for three run conditions at a much finer spatial resolution to delineate the broadband noise from these separate regions from the total acoustic spectra. These predictions were then compared to experimentally acquired data as well as to semi-empirical prediction methods to highlight the acoustic contributions of various broadband noise generation mechanisms as well as to exemplify and explain shortcomings in the semi-empirical methodology.

Christopher S Thurman↗
NASA NTRSDate not supplied

Physics-Informed Broadband Noise Source Identification and Prediction of an Ideally Twisted Rotor

This work aims to provide a physics-based approach for the prediction and isolation of broadband noise emanating from different regions of an ideally twisted rotor. A preliminary prediction was conducted using a lattice-Boltzmann method–very-large-eddy simulation (LBM-VLES) implemented within the software suite, PowerFLOW. Regions of particular interest to broadband noise were investigated by calculating one-third octave sound pressure levels of the unsteady pressure fluctuations acting on the rotor. These regions were then treated as individual Ffowcs Williams and Hawkings (FW-H) surfaces and simulated for three run conditions at a finer spatial resolution to identify the broadband noise from these separate regions and isolate it from the total acoustic spectra. These predictions were then compared to experimentally acquired data and to semiempirical prediction methods to highlight the acoustic contributions of various broadband noise generation mechanisms as well as to exemplify and explain shortcomings in the semiempirical methodology.

Christopher S Thurman↗
DOE OSTI2016

Effects of downscaled high-resolution meteorological data on the PSCF identification of emission sources

The Potential Source Contribution Function (PSCF) model has been successfully used for identifying regions of emission source at a long distance in this study, the PSCF model relies on backward trajectories calculated by the Hybrid Single-Particle Lagrangian Integrated Trajectory (HYSPLIT) model. In this study, we investigated the impacts of grid resolution and Planetary Boundary Layer (PBL) parameterization (e.g., turbulent transport of pollutants) on the PSCF analysis. The Mellor-Yamada-Janjic (MYJ) and Yonsei University (YUS) parameterization schemes were selected to model the turbulent transport in the PBL within the Weather Research and Forecasting (WRF version 3.6) model. Two separate domain grid sizes (83 and 27 km) were chosen in the WRF downscaling in generating the wind data for driving the HYSPLIT calculation. The effects of grid size and PBL parameterization are important in incorporating the influ- ence of regional and local meteorological processes such as jet streaks, blocking patterns, Rossby waves, and terrain-induced convection on the transport of pollutants by a wind trajectory. We found high resolution PSCF did discover and locate source areas more precisely than that with lower resolution meteorological inputs. The lack of anticipated improvement could also be because a PBL scheme chosen to produce the WRF data was only a local parameterization and unable to faithfully duplicate the real atmosphere on a global scale. The MYJ scheme was able to replicate PSCF source identification by those using the Reanalysis and discover additional source areas that was not identified by the Reanalysis data. In conclusion, a potential benefit for using high-resolution wind data in the PSCF modeling is that it could discover new source location in addition to those identified by using the Reanalysis data input.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2018

Identification and Characterization of Dust Source Regions Across North Africa and the Middle East Using MISR Satellite Observations

Abstract Motivated by limitations in current satellite‐based dust source identification techniques, this study examines dust emissions and concentrations over North Africa and the Middle East during 2000–2016 by analyzing stereo and optical products from the Multiangle Imaging SpectroRadiometer instrument on the National Aeronautics and Space Administration polar‐orbiting Terra satellite. Based on the occurrence of fast‐moving, near‐surface dust plumes from the Multiangle Imaging SpectroRadiometer cloud motion vector product, dust sources in the study region are identified in geographical depressions, including the Bodélé Depression, which represents the leading source. The West African El Djouf desert generates substantial dust emissions, which are typically underestimated by aerosol loading‐based dust source identifications. In response to local vegetation cover anomalies, dust emissions and concentrations increased at 15% year −1 over the Middle East and decreased at 12% year −1 over the central Sahel during 2001–2013 but partly recovered toward their climatological means afterward.

Yu, Yan↗
NASA NTRS1989

A smart pattern recognition system for the automatic identification of aerospace acoustic sources

An intelligent air-noise recognition system is described that uses pattern recognition techniques to distinguish noise signatures of five different types of acoustic sources, including jet planes, propeller planes, a helicopter, train, and wind turbine. Information for classification is calculated using the power spectral density and autocorrelation taken from the output of a single microphone. Using this system, as many as 90 percent of test recordings were correctly identified, indicating that the linear discriminant functions developed can be used for aerospace source identification.

Cabell, R. H.↗
NASA NTRS2024

Urban Air Quality Management at Low-Cost Using Micro Air Sensors: A Case Study From Accra, Ghana

Urban air quality management is dependent on the availability of local air pollution data. In many major urban centers of Africa, there is limited to non-existent information on air quality. This is gradually changing in part due to the increasing use of micro air sensors which have the potential to enable the generation of ground-based air quality data at fine scales for understanding local emission trends. Regional literature on the application of the high-resolution data for emission source identification in this region is limited. In this study a micro air sensor was co-located at the Physics Department, University of Ghana with a reference grade instrument to evaluate its performance for estimating PM2.5 pollution accurately at fine scales and the value of this data in identification of local sources and their behavior over time. For this study 15 weeks of data at hourly resolution with approximately 2500 data pairs are generated and analyzed (June 01, 2023, to September 15, 2023). For this time period a coefficient of determination (r 2 ) of 0.83 was generated with a mean absolute error (MAE) of 5.44 μgm -3 between the pre local calibration micro air sensor (i.e. out of box) and the reference-grade instrument. Following currently accepted best practice methods (see e.g., PAS4023) a domain specific (i.e. local) calibration factor was generated using a multi-linear regression model and when this factor is applied to the micro air sensor data, a reduction i.e., improvement in MAE to 1.43 μgm -3 was found. Daily variation was calculated, a receptor model was applied, and time series plots as a function of wind direction were generated, including PM2.5/PM10 ratio scatter and count plots to explore the utility of this observational approach for local source identification. The 3 data sets were compared (out of box, domain calibrated and reference-grade) and it was found that although there were variations in the data reported, source areas highlighted based on these data were similar, with input from local sources such as traffic emissions and biomass burning. As the temporal resolution of observational data associated with these micro air sensors is higher than for reference grade instruments (primarily due to costs and logistics limitations), they have the potential to provide insight into the complex, often hyper localized sources associated with urban areas, such as those found in major African cities.

Source apportionment↗
DOE OSTI2025

sourcePy

Pollutant source identification techniques (of which there are many variations) are either locked behind researchers writing their own code for each use case or GUI platforms that are easy to use but inflexible and opaque. The Python package sourcePy brings together many of the pollutant source identification algorithms, giving the user full control out of the box. It aims to create a platform for source identification experiments where the full analysis from beginning to end can be done in Python, with a level of specificity in design that isn't available in the GUI options. sourcePy provides users with a few key features: -A Python interface with HYSPLIT, which can be used to generate trajectories and concentration plumes -Several Python classes which standardize the preparation and processing of data related to source identification experiments -Example scripts and notebooks that allow even new python users to get started with their own experiments quickly -Visualization methods

Arseneau, Isaac [Oak Ridge National Laboratory (OR↗
DOE OSTI2016

Contaminant point source localization error estimates as functions of data quantity and model quality

We develop empirically-grounded error envelopes for localization of a point contamination release event in the saturated zone of a previously uncharacterized heterogeneous aquifer into which a number of plume-intercepting wells have been drilled. We assume that flow direction in the aquifer is known exactly and velocity is known to within a factor of two of our best guess from well observations prior to source identification. Other aquifer and source parameters must be estimated by interpretation of well breakthrough data via the advection-dispersion equation. We employ high performance computing to generate numerous random realizations of aquifer parameters and well locations, simulate well breakthrough data, and then employ unsupervised machine optimization techniques to estimate the most likely spatial (or space-time) location of the source. Tabulating the accuracy of these estimates from the multiple realizations, we relate the size of 90% and 95% confidence envelopes to the data quantity (number of wells) and model quality (fidelity of ADE interpretation model to actual concentrations in a heterogeneous aquifer with channelized flow). We find that for purely spatial localization of the contaminant source, increased data quantities can make up for reduced model quality. For space-time localization, we find similar qualitative behavior, but significantly degraded spatial localization reliability and less improvement from extra data collection. Since the space-time source localization problem is much more challenging, we also tried a multiple-initial-guess optimization strategy. Furthermore, this greatly enhanced performance, but gains from additional data collection remained limited.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS1990

The HEAO A-1 X Ray Source Catalog (Wood Et Al. 1984): Documentation for the Machine-Readable Version

The machine-readable version of the catalog, as it is currently being distributed from the Astronomical Data Center, is described. The catalog is a compilation of data for 842 sources detected with the U.S. Naval Research Laboratory Large Area Sky Survey Experiment flown aboard the HEAO 1 satellite. The data include source identifications, positions, error boxes, mean X-ray intensities, and cross identifications to other source designations.

Warren, Wayne H., Jr.↗