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At least 181 records · Page 10

Geobotanical remote sensing for determination of aggregate source material

Aggregate source material suitable for facility and roadbed construction is often a very limited and highly valuable resource. The location of suitable source material is crucial to construction operations once facility requirements are established. The application of airborne and spaceborne remote sensing to terrain information requirements has proved attractive because of the rapid processing time and extensive spatial coverage associated with remotely gathered imagery. Source material identification may be improved by the remote sensing of vegetation associated with the material, particularly in areas of high vegetative cover. A research study employing remote sensing techniques was initiated to determine if vegetation could be used to discriminate parent materials for suitability as aggregate source material. Two test sites representing potential alluvial and residual source areas were selected in a semiarid region of Central California. Methods developed for the study included field observations of vegetation characteristics associated with the two parent material types along with the analysis of Thematic Mapper Simulator data flown over the test sites. The most useful images were those composites that included bands from two of the techniques (i.e., a Perpendicular Vegetation Index (PVI) band combined with principal components bands).

Minor, Timothy↗

XUV spectra of the 1973 June 15 solar flare observed from Skylab. III - A list of spectral lines from 1000 to 1940 A

A wavelength list of spectral lines between 1000 and 1940 A is presented for the solar flare that occurred on June 15, 1973. The spectra were recorded by the NRL spectrograph on Skylab. The spectral resolution is 0.06 A. Intensities, identifications, and estimates of line widths are given. The intensity of the continuum is also given at 50-A intervals between 1400 and 1900 A. The wavelength list includes about 1400 lines; about 30% of these lines are not indentified. Because of the high wavelength resolution, this line list will be useful as a source of identification for some stellar as well as solar spectra. In particular, the list should be a useful aid in the identification of lines in the spectra of stars with classifications close to that of the sun. Spectra of such stars may be obtained from the recently launched IUE spacecraft. It is also interesting to compare the list with some of the spectra of early-type stars recorded by Copernicus.

Cohen, L.↗

Proteomics Analysis of Human Contaminant Proteins

Complete characterization of unknowns via proteomics remains challenging. There exist regions of mass spectrometry-based proteomics data where empirical measurements are not attributed to peptides, and/or sequenced peptides from mass spectra are not attributed to any source. These uncharacterized regions are known as the “dark” proteome. Many proteomics tools rely on some a priori knowledge of sample composition; few tools allow for investigation of unknowns without relying on composition assumptions. Further, the potential low abundance of minor traces in these uncharacterized regions can make elucidation of the “dark” proteome challenging. Herein, we describe the development and evaluation of approaches to study the “dark” proteome and move towards an untargeted approach for more complete characterization, namely by studying minor human protein traces in non-human samples and combining that approach with non-human source organism identification without relying on assumptions. Human protein markers, in the form of genetically variant peptides, have been extensively examined in a variety of human matrices, including blood, plasma, and hair, but have yet to be investigated in non-human samples, such as cell cultures, as human contaminant traces. Genetically variant peptides are those that are found in proteins carrying single nucleotide polymorphisms. In this work, we aimed to (1) investigate the feasibility of detecting human contaminant genetically variant peptides (GVPs) in a diverse set of non-human organisms using public proteomics data and a computational pipeline, as well as to (2) develop a combined capability for untargeted source organism characterization and GVP detection. To our knowledge, this is the first report of applying these approaches towards a more complete proteomic characterization of unknowns. We successfully demonstrate the feasibility of broad human contaminant GVP detection in proteomics data, develop a better understanding of GVP detectability, characterize the sample-to-sample variability in GVP detection, and identify a core set of GVPs that can potentially be used as markers indicative of the human contaminant traces portion of the “dark” proteome. Further, we developed and evaluated a combined pipeline, MARLOWE-GVP, that enables both untargeted source organism characterization and GVP detection. We show high accuracy of correct source organism characterization and high degree of similarity of human contaminant GVP detection compared to the conventional approach. Success on both these efforts have allowed us to advance our understanding and characterization of the “dark” proteome.

59 BASIC BIOLOGICAL SCIENCES↗

Mapping Rice Production in China with AVHRR Imagery

The study of rice agriculture is necessary for both the importance of rice as a vital food source and because of the fact that cultivating it has an unfortunate byproduct, namely methane gas. As a food source, rice is a staple for a large majority of the world's population, especially in Asia. Because the populations of many Asian nations are increasing at rapid rates, the production of rice will need to similarly increase. In 1989, it was estimated that the demand for rice would increase by 65% by the year 2019. Rice crops are considered to be one of the primary anthropogenic sources of methane gas. A reason for concern is that this gas is a so-called "greenhouse" trace gas and given its increasing levels in the atmosphere, is thought to contribute to the suspected global warming phenomenon. Some estimate that methane may contribute up to 20% to the global warming effect. Trace gas emissions from anthropogenic sources is an issue that generates great worldwide interest because of the fact that mankind is very likely affecting the current and future climate in potentially negative ways. In an effort to better understand these effects, scientists and engineers are conducting research on all of the varied fronts which relate to climate change and biosphere/atmosphere interactions. The study of global warming through increasing concentrations of greenhouse gases is one area which has received much media and scientific attention. Research fueled by debates on this topic is being conducted on numerous, interrelated fronts in an effort to better understand the complex relationship between human activities and the earth's climate. The research ranges from attempting to verify if the observed data even supports the existence of an anthropogenically generated global-warming phenomenon, to identification of sources and sinks of the trace gases, to measuring the source strengths, to studies which focus on modeling the processes which generate the gases, and finally, to trying to project their impact on the global climatic system. Some of the more commonly known sources of greenhouse gases are related to industry and transportation. Carbon dioxide, CO2, from automobile emissions is one such example. Lesser known are sources from natural and cultivated vegetation, such as the methane, CH4, resulting from rice cropping. While the concentration of atmospheric methane is significantly less than that of carbon dioxide, CH4 has been estimated to have up to 32 times the insulating capability of carbon dioxide, making it an important gas to monitor. The remainder of this chapter will provide some additional background information on the effects of atmospheric methane, and the role that rice agriculture plays as a source in the methane budget. This will be followed by a brief description of efforts to model this source of atmospheric methane. Finally, this chapter will end with a statement of the hypotheses of this thesis, at which time a description of the information contained in the rest of this document will be provided.

Paliouras, Eleni J.↗

Identification of shared viral sequences in peat moss metagenomes reveals elements of a possible Sphagnum core virome

Viruses are an understudied component of plant microbiomes. Identifying viruses that are shared between individual plants, or members of the “core virome”, could reveal stable viral populations with the potential to modulate the composition and function of the microbiome. Here, we examined the virome associated with Sphagnum mosses, a keystone species that has direct influence over the fate of peatland carbon stores. We analyzed bulk metagenomes and metatranscriptomes generated from Sphagnum field samples collected over a ten-month period to identify virus-like sequences shared among plants. Individual Sphagnum samples harbored distinct DNA and RNA viromes where only a small percentage (< 1%) of the total number of identified viral contigs were shared among all samples. Based on taxonomic classification, the shared viral contigs represent bacterial viruses, or phage (Caudoviricetes), as well as viruses of eukaryotes, namely nucleocytoplasmic large DNA viruses (Nucleocytoviricota) and RNA viruses (Riboviria). We linked the shared phage-like contigs to viral regions within sequenced genomes of bacterial taxa that are members of the Sphagnum core microbiome, suggesting that these contigs represent temperate phage or degraded prophage. The putative nucleocytoplasmic large DNA viruses and RNA viruses were phylogenetically diverse and showed sequence similarity to viruses associated with a broad range of hosts and environmental sources. The identification of shared viral contigs suggested that, despite the compositional heterogeneity between samples, Sphagnum mosses may harbor a core virome. Future work validating the presence of the core virome is warranted as it may aid in understanding how persistent viruses impact microbiome ecology and symbiont evolution within this climatically relevant keystone species.

Metagenomics↗

Global Explainability of A Deep Abstaining Classifier for Cancer Pathology Reports

We present a global explainability method to characterize sources of errors in a real-world multitask deep abstaining classifier (DAC), in the context of cancer histology prediction. Our multitask classifier, currently deployed for automated annotation of cancer pathology reports from NCI-SEER registries, was trained and evaluated on 1.04 million hand-annotated samples and makes simultaneous predictions of cancer site, subsite, histology, laterality, and behavior for each report. The DAC framework enables the model to abstain on ambiguous reports and confusing classes to achieve the target accuracy on the retained (non-abstained) samples, but at the cost of decreased coverage. Requiring 97% accuracy on the histology task caused our model to retain only 22% of all samples, mostly the less ambiguous and common classes. Local explainability with the GradInp technique provided a computationally efficient way of obtaining contextual reasoning for hundreds of thousands of individual predictions. Our method, involving dimensionality reduction of approximately 13000 aggregated local explanations (ALE), offers a tractable path to true global explainability. It enabled identification of sources of errors in histology classification, globally, as hierarchical complexity among classes, label noise, insufficient information, and conflicting evidence. This suggests several strategies for iterative improvement of our DAC, including well-designed exclusion criteria, focused annotation, and reduced penalties for errors involving hierarchically related classes.

59 BASIC BIOLOGICAL SCIENCES↗

Optical identification of the supersoft X-ray source 1E 0035.4 in the Small Magellanic Cloud

We report the identification of the optical counterpart of the Small Magellanic Cloud (SMC) super-soft X-ray source 1E0035.4- 7230 with a variable star of the magnitude B = 19.9-20.2 within the 40 arcsecs Einstein error box. The star shows strong UV excess, a hot, blue continuum and weak lines of high ionization. The lines are red-shifted by 3-4 A, indicating SMC membership. This object appears similar to CAL 83 and CAL 87 and is probably a binary system hosting an accreting, hydrogen burning white dwarf.

Orio, M.↗

Data for training and testing radiation detection algorithms in an urban environment

The detection, identification, and localization of illicit nuclear materials in urban environments is of utmost importance for national security. Most often, the process of performing these operations consists of a team of trained individuals equipped with radiation detection devices that have built-in algorithms to alert the user to the presence nuclear material and, if possible, to identify the type of nuclear material present. To encourage the development of new detection, radioisotope identification, and source localization algorithms, a dataset consisting of realistic Monte Carlo-simulated radiation detection data from a 2 in. × 4 in. × 16 in. NaI(Tl) scintillation detector moving through a simulated urban environment based on Knoxville, Tennessee, was developed and made public in the form of a Topcoder competition. The methodology used to create this dataset has been verified using experimental data collected at the Fort Indiantown Gap National Guard facility. Realistic signals from special nuclear material and industrial and medical sources are included in the data for developing and testing algorithms in a dynamic real-world background.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

Narrow-Band Least-Squares Infrasound Array Processing

Infrasound data from arrays can be used to detect, locate, and quantify a variety of natural and anthropogenic sources from local to remote distances. However, many array processing methods use a single broad frequency range to process the data, which can lead to signals of interest being missed due to the choice of frequency limits or simultaneous clutter sources. In this work, we introduce a new open-source Python code that processes infrasound array data in multiple sequential narrow frequency bands using the least-squares approach. We test our algorithm on a few examples of natural sources (volcanic eruptions, mass movements, and bolides) for a variety of array configurations. Our method reduces the need to choose frequency limits for processing, which may result in missed signals, and it is parallelized to decrease the computational burden. Improvements of our narrow-band least-squares algorithm over broad-band least-squares processing include the ability to distinguish between multiple simultaneous sources if distinct in their frequency content (e.g., microbarom or surf vs. volcanic eruption), the ability to track changes in frequency content of a signal through time, and a decreased need to fine-tune frequency limits for processing. We incorporate a measure of planarity of the wavefield across the array (sigma tau, στ) as well as the ability to utilize the robust least trimmed squares algorithm to improve signal processing and insight into array performance. Our implementation allows for more detailed characterization of infrasound signals recorded at arrays that can improve monitoring and enhance research capabilities.

58 GEOSCIENCES↗

Student Programs Office Overview [Slides]

The Student Programs further the Laboratory’s goal of developing and mentoring the next generation of scientific, technical, and professional staff by supporting 2,000+ interns at all levels (high school, undergraduate, graduate, and postgraduate) along with 2,000+ mentors and 70 division student liaisons. The activities include internship promotion and external engagement, intern identification and sourcing, training and orientation, professional and career development, social and community engagement, and compliance.

99 GENERAL AND MISCELLANEOUS↗

Prospecting for Critical Minerals and Rare Earth Elements from Marcellus Shale in the Western Portion of the Appalachian Basin with Non-Destructive Core Characterization

Identification of sources for domestic critical minerals and rare earth elements (CM/REE) has been deemed essential for the energy transition by the United States Department of Energy (DOE). The U.S. DOE’s National Energy Technology Laboratory’s (NETL) Geomaterials Characterization Laboratory has performed non-destructive core characterizations on energy-relevant rock cores for the past decade. During this time, NETL has published over 36 technical reports and made the associated data publicly available. Much of this work focuses on unconventional shale gas, subsurface carbon storage systems, and carbon-ore. These efforts provide cm-scale petrophysical and elemental data, photographic documentation, detailed core descriptions, and computed tomography (CT) data for each well. This provides a first phase prospecting resource for CM/REE resources and can provide a map for pin-pointing intervals and lithologies for further development. Using historical core characterization data from 12 Marcellus wells from the western portion of the Appalachian Basin, this study builds an improved understanding of the chemostratigraphy of the basin. X-ray fluorescence (XRF) and CT images were used to determine lithologic intervals and potential ore bodies for further analysis, including benchtop digestion and inductively coupled plasma mass spectrometry (ICP-MS) to better understand the CM/REE enrichments.

Paronish, Thomas J.↗

Calculating Methane Emissions from Offshore Facilities Using Bottom-Up Methods

With changing demands in regulation, understanding methane emissions from offshore oil and gas production infrastructure has become increasingly important. Reported emissions from facilities in the Gulf of Mexico range from zero to thousands of tons of methane per hour, but these is currently no clear understanding of how this range compares to expected emissions from normally operating facilities. To generate realistic emission estimates, we create two bottom-up models that simulate emissions from facilities operating in the Gulf of Mexico. We estimate type 1 prototypical facilities (typically unmanned, older, lower-producing platforms in shallow water with little processing equipment, compressors, or storage tanks) to emit an average of 13 kg CH 4 h −1 , which corresponds to a loss of 2.7% of the average facility production. Type 2 prototypical facilities (continuously manned, higher production and operate in deeper water with processing equipment, oil storage tanks, compressors and power generation) emit an average of 88 kg CH 4 h −1 , which corresponds to a loss of 2.5% of production. The average measured emission from type 1 facilities was 18 kg CH 4 h −1 with a median production loss estimated at 8%. The average measured emission from type 2 facilities was 36 kg CH 4 h −1 with a median production loss estimated at 2.4%. Using emission factors that consider the long-tail emission distribution partly reconciles the difference between modelled and measured emission estimates, but we suggest the current the fugitive emission estimate may be an underestimate and more data on the number and size of fugitive emissions could explain differences between the modelled and measured emission estimate. We suggest the bottom-up approach described here that uses production data coupled with facility equipment could be used to identify facilities that have abnormally large measured emissions, caused by methodological failure or larger than expected fugitive emissions, which should be targeted for further evaluation resulting in remeasurement or identification of source type so that a more accurate estimates can be made on the absolute emission.

bottom-up↗

Accurate assessment of land–atmosphere coupling in climate models requires high-frequency data output

Land–atmosphere (L–A) interactions are important for understanding convective processes, climate feedbacks, the development and perpetuation of droughts, heatwaves, pluvials, and other land-centered climate anomalies. Local L–A coupling (LoCo) metrics capture relevant L–A processes, highlighting the impact of soil and vegetation states on surface flux partitioning and the impact of surface fluxes on boundary layer (BL) growth and development and the entrainment of air above the BL. A primary goal of the Climate Process Team in the Coupling Land and Atmospheric Subgrid Parameterizations (CLASP) project is parameterizing and characterizing the impact of subgrid heterogeneity in global and regional Earth system models (ESMs) to improve the connection between land and atmospheric states and processes. A critical step in achieving that aim is the incorporation of L–A metrics, especially LoCo metrics, into climate model diagnostic process streams. However, because land–atmosphere interactions span timescales of minutes (e.g., turbulent fluxes), hours (e.g., BL growth and decay), days (e.g., soil moisture memory), and seasons (e.g., variability in behavioral regimes between soil moisture and latent heat flux), with multiple processes of interest happening in different geographic regions at different times of year, there is not a single metric that captures all the modes, means, and methods of interaction between the land and the atmosphere. And while monthly means of most of the LoCo-relevant variables are routinely saved from ESM simulations, data storage constraints typically preclude routine archival of the hourly data that would enable the calculation of all LoCo metrics. Here, we outline a reasonable data request that would allow for adequate characterization of sub-daily coupling processes between the land and the atmosphere, preserving enough sub-daily output to describe, analyze, and better understand L–A coupling in modern climate models. A secondary request involves embedding calculations within the models to determine mean properties in and above the BL to further improve characterization of model behavior. Higher-frequency model output will (i) allow for more direct comparison with observational field campaigns on process-relevant timescales, (ii) enable demonstration of inter-model spread in L–A coupling processes, and (iii) aid in targeted identification of sources of deficiencies and opportunities for improvement of the models.

54 ENVIRONMENTAL SCIENCES↗

Role of pressure transients in the detection and identification of lunar surface gas sources.

The dynamic behavior of neutral gases emitted from lunar surface sources is investigated. Pressure transients to be expected from several types of possible lunar surface sources are constructed. An approximate method is developed to estimate the source-sensor separation distance and the amount of effluent release. The case for which the source location and effluent molecular weight can be determined from ancillary data is discussed. It is shown that, if such data are available, pressure transients detected by either Apollo lunar surface experiment package ion spectrometers or cold cathode gages can be used to determine the release rate and the total amount of effluent release from the source.

Hall, F. G.↗

Investigation of a Real-time Processing System for the NASA Multifrequency Microwave Radiometer

A study was conducted to investigate the data reduction and processing requirements for the multifrequency microwave radiometer system (MFMR). The objectives were to develop and evaluate algorithms and processing techniques which might provide for dedicated real time or near real time data processing and to develop a configuration design and processor recommendation to accomplish the data reduction. An analysis of the required data reduction and calibration equations was included along with the identification of sources of error which may be present in the (MFMR) data. The definition and evaluation of the significance of effects introduced by aircraft perturbation was given.

Source record↗

A computer program for the identification of helicopter impulsive noise sources

A computer program is presented for calculating the source location of implusive noise in helicopters. The program (INSL) is written in FORTRAN for the CDC 7600 computer. Inputs are the rotor operating conditions and the time intervals (T) between rotor 1/rev index and impulsive noises as measured by different microphones. The outputs are the possible noise source locations in terms of rotor radial and azimuthal coordinates. Typical computer time for a run of six microphone measurements is 1.5 sec, and the cost is about 12 cents for the CDC 7600.

Lee, A.↗

GP-B error modeling and analysis

Individual source errors and their effects on the accuracy of the Gravity Probe B (GP-B) experiment were investigated. Emphasis was placed on: (1) the refinement of source error identification and classifications of error according to their physical nature; (2) error analysis for the GP-B data processing; and (3) measurement geometry for the experiment.

Hung, J. C.↗