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DOE OSTI2018

A novel application of terrestrial LIDAR to characterize elevation change at human grave surfaces in support of narrowing down possible unmarked grave locations

Unmarked graves are difficult to locate once the ground surface no longer shows visible evidence of disturbance, posing significant challenges to missing person investigations. This research evaluates the use of terrestrial LIDAR point data for measuring localized elevation change at human grave surfaces. Three differently sized human graves, one control-pit, and surrounding undisturbed ground, were scanned four times between February 2013 and November 2014 using a tripod-mounted terrestrial laser scanner. All the disturbed surfaces exhibited measurable and localized elevation change, allowing for separation of disturbed and undisturbed ground. In conclusion, this study is the first to quantify elevation changes to human graves over time and demonstrates that terrestrial LIDAR may contribute to multi-modal data collection approach to improve unmarked grave detection.

47 OTHER INSTRUMENTATION↗

DOE OSTI2021

Alternative pathways utilize or circumvent putrescine for biosynthesis of putrescine-containing rhizoferrin

The siderophore rhizoferrin (N 1 ,N 4 -dicitrylputrescine) is produced in fungi and bacteria to scavenge iron. Putrescine-producing bacterium Ralstonia pickettii synthesizes rhizoferrin and encodes a single nonribosomal peptide synthetase-independent siderophore (NIS) synthetase. From biosynthetic logic, we hypothesized that this single enzyme is sufficient for rhizoferrin biosynthesis. We confirmed this by expression of R. pickettii NIS synthetase in Escherichia coli, resulting in rhizoferrin production. This was further confirmed in vitro using the recombinant NIS synthetase, synthesizing rhizoferrin from putrescine and citrate. Heterologous expression of homologous lbtA from Legionella pneumophila, required for rhizoferrin biosynthesis in that species, produced siderophore activity in E. coli. Rhizoferrin is also synthesized by Francisella tularensis and Francisella novicida, but unlike R. pickettii or L. pneumophila, Francisella species lack putrescine biosynthetic pathways because of genomic decay. Francisella encodes a NIS synthetase FslA/FigA and an ornithine decarboxylase homolog FslC/FigC, required for rhizoferrin biosynthesis. Ornithine decarboxylase produces putrescine from ornithine, but we show here in vitro that FigA synthesizes N-citrylornithine, and FigC is an N-citrylornithine decarboxylase that together synthesize rhizoferrin without using putrescine. We co-expressed F. novicida figA and figC in E. coli and produced rhizoferrin. A 2.1 Å X-ray crystal structure of the FigC N-citrylornithine decarboxylase reveals how the larger substrate is accommodated and how active site residues have changed to recognize N-citrylornithine. FigC belongs to a new subfamily of alanine racemase-fold PLP-dependent decarboxylases that are not involved in polyamine biosynthesis. These data reveal a natural product biosynthetic workaround that evolved to bypass a missing precursor and re-establish it in the final structure.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2022

A multi-modal scanning system to digitize CBRNE emergency response scenes

A handheld system developed to digitize a contextual understanding of the scene at a chemical, biological, radiological, nuclear and/or explosives (CBRNE) events is described. The system uses LiDAR and cameras to create a colorized 3D model of the environment, which helps domain experts that are supporting responders in the field. To generate the digitized model, a responder scans any suspicious objects and the surroundings by carrying the system through the scene. The scanning system provides a real-time user interface to inform the user about scanning progress and to indicate any areas that may have been missed either by the LiDAR sensors or the cameras. Currently, the collected data are post-processed on a different device, building a colorized triangular mesh of the encountered scene, with the intention of moving this pipeline to the scanner at a later point. The mesh is sufficiently compressed to be sent over a reduced bandwidth connection to a remote analyst. Furthermore, the system tracks fiducial markers attached to diagnostic equipment that is placed around the suspicious object. The resulting tracking information can be transmitted to remote analysts to further facilitate their supporting efforts. The paper will discuss the system's design, software components, the user interface used for scanning a scene, the necessary procedures for calibration of the sensors, and the processing steps of the resulting data. The discussion will close by evaluating the system's performance on 11 scenes.

Salathe, Marco↗

DOE OSTI2024

Spatially Local Surrogate Modeling of Subgrid-Scale Effects in Idealized Atmospheric Flows: A Deep Learned Approach Using High-Resolution Simulation Data

Abstract We introduce a machine learned surrogate model from high-resolution simulation data to capture the subgrid-scale effects in dry, stratified atmospheric flows. We use deep neural networks (NNs) to model the spatially local state differences between a coarse-resolution simulation and a high-resolution simulation. The setup enables the capture of both dissipative and antidissipative effects in the state differences. The NN model is able to accurately capture the state differences in offline tests outside the training regime. In online tests intended for production use, the NN-coupled coarse simulation has higher accuracy over a significant period of time compared to the coarse-resolution simulation without any correction. We provide evidence of the capability of the NN model to accurately capture high-gradient regions in the flow field. With the accumulation of the errors, the NN-coupled simulation becomes computationally unstable after approximately 90 coarse simulation time steps. Insights gained from these surrogate models further pave the way for formulating stable, complex, physics-based spatially local NN models which are driven by traditional subgrid-scale turbulence closure models. Significance Statement Flows in the atmosphere are highly chaotic and turbulent, comprising flow structures of broad scales. For effective computational modeling of atmospheric flows, the effects of the small- and large-scale structures need to be captured by the simulations. Capturing the small-scale structures requires fine-resolution simulations. Even with the current state-of-the-art supercomputers, it can be prohibitively expensive to simulate these flows when computed for the entire earth over climate time scales. Thus, it is necessary to focus on the larger-scale structures using a coarse-resolution simulation while capturing the effects of the smaller-scale structures using some parameterization (approximation) scheme and incorporating it into the coarse-resolution simulation. We use machine learning to model the effects of the small-scale structures (subgrid-scale effects) in atmospheric flows. Data from a fine-resolution simulation is used to compute the missing subgrid-scale effects in coarse-resolution simulations. We then use machine learning models to approximate these differences between the coarse- and fine-resolution simulations. We see improved accuracy for the coarse-resolution simulations when corrected using these machine learned models.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2014

Search for direct top squark pair production in events with a Z boson, b-jets and missing transverse momentum in sqrt(s)=8 TeV pp collisions with the ATLAS detector

CERN-LHC. A search is presented for direct top squark pair production using events with at least two leptons including a same-flavour opposite-sign pair with invariant mass consistent with the Z boson mass, jets tagged as originating from b-quarks and missing transverse momentum. The analysis is performed with proton-proton collision data at sqrt(s) = 8 TeV collected with the ATLAS detector at the LHC in 2012 corresponding to an integrated luminosity of 20.3 fb^-1. No excess beyond the Standard Model expectation is observed. Interpretations of the results are provided in models based on the direct pair production of the heavier top squark state (t2) followed by the decay to the lighter top squark state (t1) via t2 --> Z t1, and for t1 pair production in natural gauge-mediated supersymmetry breaking scenarios where the neutralino (chi1^0) is the next-to-lightest supersymmetric particle and decays producing a Z boson and a gravitino (G) via the chi1^0 --> Z G process.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2014

Search for new particles in events with one lepton and missing transverse momentum in p p collisions at s = 8 TeV with the ATLAS detector

CERN-LHC. This paper presents a search for new particles in events with one lepton (electron or muon) and missing transverse momentum using 20.3 fb-1 of proton-proton collision data at sqrt(s)=8 TeV recorded by the ATLAS experiment at the Large Hadron Collider. No significant excess beyond Standard Model expectations is observed. A WPRIME with Sequential Standard Model couplings is excluded at the 95% confidence level for masses up to 3.24 TeV. Excited chiral bosons (W*) with equivalent coupling strengths are excluded for masses up to 3.21 TeV. In the framework of an effective field theory limits are also set on the dark matter-nucleon scattering cross-section as well as the mass scale M* of the unknown mediating interaction for dark matter pair production in association with a leptonically decaying W.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2014

Search for new phenomena in events with a photon and missing transverse momentum in p p collisions at s = 8 TeV with the ATLAS detector

CERN-LHC. Results of a search for new phenomena in events with an energetic photon and large missing transverse momentum with the ATLAS experiment at the LHC are reported. Data were collected in proton--proton collisions at a center-of-mass energy of 8 TeV and correspond to an integrated luminosity of 20.3 fb-1. The observed data are well described by the expected Standard Model backgrounds. The expected (observed) upper limit on the fiducial cross section for the production of such events is 6.1 (5.3) fb at 95% confidence level. Exclusion limits are presented on models of new phenomena with large extra spatial dimensions, supersymmetric quarks, and direct pair production of dark-matter candidates.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2022

A multi-modal scanning system to digitize CBRNE emergency response scenes

Prins, Nicholas↗

DOE OSTI2023

Search for new physics in multijet events with at least one photon and large missing transverse momentum in proton-proton collisions at 13 TeV

A search for new physics in final states consisting of at least one photon, multiple jets, and large missing transverse momentum is presented, using proton-proton collision events at a center-of-mass energy of 13 TeV. The data correspond to an integrated luminosity of 137 fb$^{−1}$, recorded by the CMS experiment at the CERN LHC from 2016 to 2018. The events are divided into mutually exclusive bins characterized by the missing transverse momentum, the number of jets, the number of b-tagged jets, and jets consistent with the presence of hadronically decaying W, Z, or Higgs bosons. The observed data are found to be consistent with the prediction from standard model processes. The results are interpreted in the context of simplified models of pair production of supersymmetric particles via strong and electroweak interactions. Depending on the details of the signal models, gluinos and squarks of masses up to 2.35 and 1.43 TeV, respectively, and electroweakinos of masses up to 1.23 TeV are excluded at 95% confidence level.[graphic not available: see fulltext]

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2016

Search for top squarks in final states with one isolated lepton, jets, and missing transverse momentum in s = 13 TeV p p collisions with the ATLAS detector

The results of a search for the top squark, the supersymmetric partner of the top quark, in final states with one isolated electron or muon, jets, and missing transverse momentum are reported. The search uses the 2015 LHC p p collision data at a center-of-mass energy of √ s = 13 TeV recorded by the ATLAS detector and corresponding to an integrated luminosity of 3.2 fb - 1 . The analysis targets two types of signal models: gluino-mediated pair production of top squarks with a nearly mass-degenerate top squark and neutralino and direct pair production of top squarks, decaying to the top quark and the lightest neutralino. The experimental signature in both signal scenarios is similar to that of a top quark pair produced in association with large missing transverse momentum. No significant excess over the Standard Model background prediction is observed, and exclusion limits on gluino and top squark masses are set at 95% confidence level. The results extend the LHC run-1 exclusion limit on the gluino mass up to 1460 GeV in the gluino-mediated scenario in the high gluino and low top squark mass region and add an excluded top squark mass region from 745 to 780 GeV for the direct top squark model with a massless lightest neutralino. The results are also reinterpreted to set exclusion limits in a model of vectorlike top quarks.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2015

Data Release Report for Source Physics Experiments 2 and 3 (SPE-2 and SPE-3) Nevada National Security Site

The second Source Physics Experiment shot (SPE-2) was conducted in Nevada on October 25, 2011, at 1900:00.011623 Greenwich Mean Time (GMT). The explosive source was 997 kilograms (kg) trinitrotoluene (TNT) equivalent of sensitized heavy ammonium fuel oil (SHANFO) detonated at a depth of 45.7 meters (m). The third Source Physics Experiment shot (SPE-3) was conducted in Nevada on July 24, 2012, at 1800:00.44835 GMT. The explosive source was 905 kg TNT equivalent of SHANFO detonated at a depth of 45.8 m. Both shots were recorded by an extensive set of instrumentation that includes sensors both at near-field (less than 100 m) and far-field (100 m or greater) distances. The near-field instruments consisted of three-component accelerometers deployed in boreholes at 15, 46, and 55 m depths around the shot and a set of single-component vertical accelerometers on the surface. The far-field network was composed of a variety of seismic and acoustic sensors, including short-period geophones, broadband seismometers, three-component accelerometers, and rotational seismometers at distances of 100 m to 25 kilometers. This report coincides with the release of these data for analysts and organizations that are not participants in this program. This report describes the second and third Source Physics Experiment shots and the various types of near-field and farfield data that are available.This revised document includes reports on baseline shift corrections for the SPE-2 and SPE-3 shots that were missing from the original January 2015 version.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

NASA NTRS2021

MISSE-Flight Facility Polymers and Composites Experiment 1-4 (PCE 1-4)

Spacecraft in low Earth orbit (LEO) are subjected to harsh environmental conditions, including radiation (cosmic rays, ultraviolet (UV), x-ray and charged particle radiation), micrometeoroids and orbital debris, temperature extremes, thermal cycling, and atomic oxygen (AO). These environmental exposures can result in erosion, embrittlement and optical property degradation of susceptible materials threatening spacecraft performance and durability. To increase our understanding of effects such as AO erosion and radiation induced embrittlement of spacecraft materials, NASA Glenn Research Center has developed a series of experiments that are flown as part of the Materials International Space Station Experiment (MISSE) missions on the exterior of the International Space Station (ISS). These experiments have provided critical space environmental durability data such as AO erosion data of polymers and composites, and radiation induced mechanical property degradation of spacecraft insulation materials, after long term space exposure. In continuing these studies, four Glenn experiments have been flown on ISS’s MISSE-Flight Facility (MISSE-FF). These experiments are the Polymers and Composites Experiment-1 (PCE-1) flown as part of the inaugural MISSE-9 mission, the PCE-2 flown as part of the MISSE-10 mission, the PCE-3 being flown as part of the MISSE-12 mission, and the PCE-4 being flown as part of the MISSE-13 mission. This paper provides an overview of space environmental effects on spacecraft materials and Glenn’s PCE 1-4 MISSE-FF experiments.

Atomic oxygen↗

NASA NTRS2008

Part Marking and Identification Materials' for MISSE

The Materials on International Space Station Experiment (MISSE) is being conducted with funding from NASA and the U.S. Department of Defense, in order to evaluate candidate materials and processes for flight hardware. MISSE modules include test specimens used to validate NASA technical standards for part markings exposed to harsh environments in low-Earth orbit and space, including: atomic oxygen, ultraviolet radiation, thermal vacuum cycling, and meteoroid and orbital debris impact. Marked test specimens are evaluated and then mounted in a passive experiment container (PEC) that is affixed to an exterior surface on the International Space Station (ISS). They are exposed to atomic oxygen and/or ultraviolet radiation for a year or more before being retrieved and reevaluated. Criteria include percent contrast, axial uniformity, print growth, error correction, and overall grade. MISSE 1 and 2 (2001-2005), MISSE 3 and 4 (2006-2007), and MISSE 5 (2005-2006) have been completed to date. Acceptable results were found for test specimens marked with Data Matrix(TradeMark) symbols by Intermec Inc. and Robotic Vision Systems Inc using: laser bonding, vacuum arc vapor deposition, gas assisted laser etch, chemical etch, mechanical dot peening, laser shot peening, laser etching, and laser induced surface improvement. MISSE 6 (2008-2009) is exposing specimens marked by DataLase(Registed TradeMark), Chemico technologies Inc., Intermec Inc., and tesa with laser-markable paint, nanocode tags, DataLase and tesa laser markings, and anodized metal labels.

Roxby, Donald↗

NASA NTRS2010

Materials International Space Station Experiment-6 (MISSE-6) Atomic Oxygen Fluence Monitor Experiment

An atomic oxygen fluence monitor was flown as part of the Materials International Space Station Experiment-6 (MISSE-6). The monitor was designed to measure the accumulation of atomic oxygen fluence with time as it impinged upon the ram surface of the MISSE 6B Passive Experiment Container (PEC). This was an active experiment for which data was to be stored on a battery-powered data logger for post-flight retrieval and analysis. The atomic oxygen fluence measurement was accomplished by allowing atomic oxygen to erode two opposing wedges of pyrolytic graphite that partially covered a photodiode. As the wedges of pyrolytic graphite erode, the area of the photodiode that is illuminated by the Sun increases. The short circuit current, which is proportional to the area of illumination, was to be measured and recorded as a function of time. The short circuit current from a different photodiode, which was oriented in the same direction and had an unobstructed view of the Sun, was also to be recorded as a reference current. The ratio of the two separate recorded currents should bear a linear relationship with the accumulated atomic oxygen fluence and be independent of the intensity of solar illumination. Ground hyperthermal atomic oxygen exposure facilities were used to evaluate the linearity of the ratio of short circuit current to the atomic oxygen fluence. In flight, the current measurement circuitry failed to operate properly, thus the overall atomic oxygen mission fluence could only be estimated based on the physical erosion of the pyrolytic graphite wedges. The atomic oxygen fluence was calculated based on the knowledge of the space atomic oxygen erosion yield of pyrolytic graphite measured from samples on the MISSE 2. The atomic oxygen fluence monitor, the expected result and comparison of mission atomic oxygen fluence based on the erosion of the pyrolytic graphite and Kapton H atomic oxygen fluence witness samples are presented in this paper.

Banks, Bruce A.↗

NASA NTRS1981

Sunspots and solar variability

The analyses of Willson et al. (1981) and Hudson et al. (1981) are extended in correlating the total solar irradiance monitor (ACRIM) data with the routine synoptic sunspot data. At the simplest level, this correlation reveals clearly that the so-called 'missing flux' is truly missing in the sense that large young active regions do produce at net diminution of the irradiance when their spots cross the central meridian. It is pointed out that the irradiance deficit must of course be made up, either promptly or on intermediate time scales; this is because the surface effects cannot perturb the energy generation processes in the interior. In the approach taken here, simple models of the reemission are constructed, the total reemission is scaled to the estimated sunspot deficit, and an attempt is made to measure the parameters of the models by a statistical comparison with ACRIM data.

Hudson, H. S.↗

DOE OSTI2014

Detecting differential protein expression in large-scale population proteomics

Mass spectrometry-based high-throughput quantitative proteomics shows great potential in clinical biomarker studies, identifying and quantifying thousands of proteins in biological samples. However, methods are needed to appropriately handle issues/challenges unique to mass spectrometry data in order to detect as many biomarker proteins as possible. One issue is that different mass spectrometry experiments generate quite different total numbers of quantified peptides, which can result in more missing peptide abundances in an experiment with a smaller total number of quantified peptides. Another issue is that the quantification of peptides is sometimes absent, especially for less abundant peptides and such missing values contain the information about the peptide abundance. Here, we propose a Significance Analysis for Large-scale Proteomics Studies (SALPS) that handles missing peptide intensity values caused by the two mechanisms mentioned above. Our model has a robust performance in both simulated data and proteomics data from a large clinical study. Because varying patients’ sample qualities and deviating instrument performances are not avoidable for clinical studies performed over the course of several years, we believe that our approach will be useful to analyze large-scale clinical proteomics data.

Environmental Molecular Sciences Laboratory↗

DOE OSTI2025

First Measurement of Near-Threshold and Subthreshold 𝐽/𝜓 Photoproduction off Nuclei

We report on the first measurement of J/ψ photoproduction from nuclei in the photon energy range of 7 to 10.8 GeV, extending above and below the photoproduction threshold in the free proton of ∼ 8.2 GeV. The experiment used a tagged photon beam incident on deuterium, helium, and carbon, and the GlueX detector at Jefferson Lab to measure the semi-inclusive A(γ, e + e − p) reaction with a dilepton invariant mass M(e + e − ) ∼ m J/ψ = 3.1 GeV. The incoherent J/ψ photoproduction cross sections in the measured nuclei are extracted as a function of the incident photon energy, momentum transfer, and proton reconstructed missing light-cone momentum fraction. Comparisons with theoretical predictions assuming a dipole form factor allow extracting a gluonic radius for bound protons of p $\sqrt4⟨r^2⟩$ = 0.85 ± 0.14 fm. The data also suggest an excess of the measured cross section for sub-threshold production and for interactions with high missing light-cone momentum fraction protons. The measured enhancement can be explained by modified gluon structure for high-virtuality bound-protons.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

NASA NTRS2023

Do Citizen Science Intense Observation Periods Increase Data Usability? A Deep Dive of the NASA GLOBE Clouds Data Set With Satellite Comparisons

The Global Learning and Observations to Benefit the Environment (GLOBE) citizen science program has recently conducted a series of month-long intensive observation periods (IOPs), asking the public to submit daily reports on cloud and sky conditions from all regions of Earth. This provides a wealth of crowdsourced observations from the ground, which complements other conventional scientific cloud data. In addition, the GLOBE reports are matched in space and time with geostationary and low Earth orbit satellites, which allows for a straightforward comparison of cloud properties, and minimizes the biases associated with mismatched sampling between participants and satellites. The matched GLOBE dataset is used to calculate the mean observed cloud cover by atmospheric level both worldwide and by region. The overall magnitudes of cloud cover between the GLOBE participants and the matched satellites agree within 10%, which is notable given the distinctly different natures of the data sources. The mean vertical cloud profiles show GLOBE reporting more low-level clouds and fewer high-level clouds than satellites. The low cloud disagreement is likely related to satellites missing low clouds when high clouds block their view. Conversely, the high cloud disagreement is related primarily to cloud opacity, as satellites may miss some optically thin clouds. Monte Carlo testing shows the results to be robust, and the tripled amount of IOP data reduces uncertainty by half. These findings also highlight ways in which citizen science IOP data may be used to support scientific research while accounting for their unique properties. Plain Language Summary: Citizen science is becoming an increasingly prominent aspect of scientific research, and so it important to study how citizen science data can be used effectively. For example, The GLOBE Program has recently conducted a series of special data-collecting events, or “challenges”, which gathered large numbers of reports on cloud and sky conditions. Because NASA GLOBE Clouds matches the participant reports with cloud observations from satellites, we can use these data to get a combined view of clouds from above and below. When looking at the average cloud cover for different atmospheric levels across Earth, we find that the GLOBE participants and the satellites agree quite closely. This is a surprising and fascinating find, given how different in nature volunteer ground reports are to satellite measurements. However, there are some small but notable disagreements between GLOBE participants and satellites about the distribution of cloud cover at different levels. In addition, by testing the data for uncertainty, we show that the results from the GLOBE data are reliable, and that more public participation improves the reliability. So, by carefully designing the analysis methodology, and by testing for the uncertainty of the data, citizen science can make a meaningful contribution to scientific research.

J. Brant Dodson↗