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At least 469 records · Page 26
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Neural Network Approaches for Mobile Spectroscopic Gamma-Ray Source Detection

Artificial neural networks (ANNs) for performing spectroscopic gamma-ray source identification have been previously introduced, primarily for applications in controlled laboratory settings. To understand the utility of these methods in scenarios and environments more relevant to nuclear safety and security, this work examines the use of ANNs for mobile detection, which involves highly variable gamma-ray background, low signal-to-noise ratio measurements, and low false alarm rates. Simulated data from a 2” × 4” × 16” NaI(Tl) detector are used in this work for demonstrating these concepts, and the minimum detectable activity (MDA) is used as a performance metric in assessing model performance.In addition to examining simultaneous detection and identification, binary spectral anomaly detection using autoencoders is introduced in this work, and benchmarked using detection methods based on Non-negative Matrix Factorization (NMF) and Principal Component Analysis (PCA). On average, the autoencoder provides a 12% and 23% improvement over NMF- and PCA-based detection methods, respectively. Additionally, source identification using ANNs is extended to leverage temporal dynamics by means of recurrent neural networks, and these time-dependent models outperform their time-independent counterparts by 17% for the analysis examined here. The paper concludes with a discussion on tradeoffs between the ANN-based approaches and the benchmark methods examined here.

Bilton, Kyle J. (ORCID:0000000184553689)↗
DOE OSTI2013

Studies of Secondary Melanoma on C57BL/6J Mouse Liver Using 1H NMR Metabolomics

NMR metabolomics, consisting of solid state high resolution (hr) magic angle spinning (MAS) 1H NMR (1H hr-MAS), liquid state high resolution 1H-NMR, and principal components analysis (PCA) has been used to study secondary metastatic B16-F10 melanoma in C57BL/6J mouse liver . The melanoma group can be differentiated from its control group by PCA analysis of the absolute concentrations or by the absolute peak intensities of metabolites from either 1H hr-MAS NMR data on intact liver tissues or liquid state 1H-NMR spectra on liver tissue extracts. In particular, we found that the absolute concentrations of alanine, glutamate, creatine, creatinine, fumarate and cholesterol are elevated in the melanoma group as compared to controls, while the absolute concentrations of succinate, glycine, glucose, and the family of linear lipids including long chain fatty acids, total choline and acylglycerol are decreased. The ratio of glycerophosphocholine to phosphocholine is increased by about 1.5 fold in the melanoma group, while the absolute concentration of total choline is actually lower in melanoma mice. These results suggest the following picture in secondary melanoma metastasis: Linear lipid levels are decreased by beta oxidation in the melanoma group, which contributes to an increase in the synthesis of cholesterol, and also provides an energy source input for TCA cycle. These findings suggest a link between lipid oxidation, the TCA cycle and the hypoxia-inducible factors (HIF) signal pathway in tumor metastases. Thus this study indicates that the metabolic profile derived from NMR analysis can provide a valuable bio-signature of malignancy and cell hypoxia in metastatic melanoma.

Environmental Molecular Sciences Laboratory↗
DOE OSTI2019

Multivariate Analysis Based on Geochemical, Isotopic, and Mineralogical Compositions of Uranium-Rich Samples

The chemical and isotopic (U, Pb, Sr) signatures for a suite (n = 23) of pristine (>80 wt. % UO 2 ) and altered uraninite samples (>70–80 wt. % UO 2 ) from various locations worldwide have been determined for the purpose of identifying potential fingerprints for nuclear forensic analysis. The characterization of the uraninite samples included determination of major, minor and trace element contents, Sr, Pb, and U isotopic compositions, and secondary mineral assemblages. Due to the multivariate approach adopted in this study, principal component analysis (PCA) has been employed to allow the direct comparison of multiple variable types. The PCA results indicate that the geological origin (sandstone, metamorphite, intrusive, granite and unconformity) of pristine uraninite can be readily identified utilizing various combinations of major and/or trace element concentrations with isotopic compositions.

58 GEOSCIENCES↗
DOE OSTI2026

Cavitand-Mediated Photodimerization of Chalcones: The Effect of Supramolecular Influences and Temperature on Reaction Selectivity

The photocycloaddition (PCA) of chalcones represents an important reaction pathway for accessing substituted cyclobutanes, which is a molecular framework with utility in synthetic chemistry, materials science, and medicine. In the past, our group has demonstrated the utility of the large cavity of γ-CD as a container for encapsulating two photo reactants for directing the PCA of several classes of aryl alkenes with high stereo- and regioselectivity: the cavitand-mediated photodimerization (CMP) approach. The CMP of chalcones reported in this work further demonstrates the effectiveness of this approach as high yields of dimers were observed in the photoreactions, while they were non-reactive in the solid state and yielded only the isomerization product in homogeneous media. The γ-CD CMP of chalcones yielded predominantly dimerized products in very good to high yields (>70%), composed of a mixture of three dimers in different proportions with syn HH as the major product. Computational analysis of the ground state complex structures revealed a strong correlation between the stability of the complex and predominance of the stereoisomer in the mixture. Further insights were deduced from temperature-dependence studies, which showed a shift in dimer selectivity tending towards a single stereoisomer.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2023

Rheological Properties of Small-Molecular Liquids at High Shear Strain Rates

Molecular-scale understanding of rheological properties of small-molecular liquids and polymers is critical to optimizing their performance in practical applications such as lubrication and hydraulic fracking. We combine nonequilibrium molecular dynamics simulations with two unsupervised machine learning methods: principal component analysis (PCA) and t-distributed stochastic neighbor embedding (t-SNE), to extract the correlation between the rheological properties and molecular structure of squalane sheared at high strain rates (10 6 –10 10 s -1 ) for which substantial shear thinning is observed under pressures P ϵ 0.1–955 MPa at 293 K. Intramolecular atom pair orientation tensors of 435 × 6 dimensions and the intermolecular atom pair orientation tensors of 61 × 6 dimensions are reduced and visualized using PCA and t-SNE to assess the changes in the orientation order during the shear thinning of squalane. Dimension reduction of intramolecular orientation tensors at low pressures P = 0.1,100 MPa reveals a strong correlation between changes in strain rate and the orientation of the side-backbone atom pairs, end-backbone atom pairs, short backbone-backbone atom pairs, and long backbone-backbone atom pairs associated with a squalane molecule. At high pressures P ≥ 400 MPa, the orientation tensors are better classified by these different pair types rather than strain rate, signaling an overall limited evolution of intramolecular orientation with changes in strain rate. Dimension reduction also finds no clear evidence of the link between shear thinning at high pressures and changes in the intermolecular orientation. The alignment of squalane molecules is found to be saturated over the entire range of rates during which squalane exhibits substantial shear thinning at high pressures.

36 MATERIALS SCIENCE↗
DOE OSTI2024

Machine Learning Framework for Conotoxin Class and Molecular Target Prediction

Conotoxins are small and highly potent neurotoxic peptides derived from the venom of marine cone snails which have captured the interest of the scientific community due to their pharmacological potential. These toxins display significant sequence and structure diversity, which results in a wide range of specificities for several different ion channels and receptors. Despite the recognized importance of these compounds, our ability to determine their binding targets and toxicities remains a significant challenge. Predicting the target receptors of conotoxins, based solely on their amino acid sequence, remains a challenge due to the intricate relationships between structure, function, target specificity, and the significant conformational heterogeneity observed in conotoxins with the same primary sequence. We have previously demonstrated that the inclusion of post-translational modifications, collisional cross sections values, and other structural features, when added to the standard primary sequence features, improves the prediction accuracy of conotoxins against non-toxic and other toxic peptides across varied datasets and several different commonly used machine learning classifiers. Here, we present the effects of these features on conotoxin class and molecular target predictions, in particular, predicting conotoxins that bind to nicotinic acetylcholine receptors (nAChRs). We also demonstrate the use of the Synthetic Minority Oversampling Technique (SMOTE)-Tomek in balancing the datasets while simultaneously making the different classes more distinct by reducing the number of ambiguous samples which nearly overlap between the classes. In predicting the alpha, mu, and omega conotoxin classes, the SMOTE-Tomek PCA PLR model, using the combination of the SS and P feature sets establishes the best performance with an overall accuracy (OA) of 95.95%, with an average accuracy (AA) of 93.04%, and an f1 score of 0.959. Using this model, we obtained sensitivities of 98.98%, 89.66%, and 90.48% when predicting alpha, mu, and omega conotoxin classes, respectively. Similarly, in predicting conotoxins that bind to nAChRs, the SMOTE-Tomek PCA SVM model, which used the collisional cross sections (CCSs) and the P feature sets, demonstrated the highest performance with 91.3% OA, 91.32% AA, and an f1 score of 0.9131. The sensitivity when predicting conotoxins that bind to nAChRs is 91.46% with a 91.18% sensitivity when predicting conotoxins that do not bind to nAChRs.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

MAPPING THE SIMILARITIES OF SPECTRA: GLOBAL AND LOCALLY-BIASED APPROACHES TO SDSS GALAXIES

We present a novel approach to studying the diversity of galaxies. It is based on a novel spectral graph technique, that of locally-biased semi-supervised eigenvectors . Our method introduces new coordinates that summarize an entire spectrum, similar to but going well beyond the widely used Principal Component Analysis (PCA). Unlike PCA, however, this technique does not assume that the Euclidean distance between galaxy spectra is a good global measure of similarity. Instead, we relax that condition to only the most similar spectra, and we show that doing so yields more reliable results for many astronomical questions of interest. The global variant of our approach can identify very finely numerous astronomical phenomena of interest. The locally-biased variants of our basic approach enable us to explore subtle trends around a set of chosen objects. The power of the method is demonstrated in the Sloan Digital Sky Survey Main Galaxy Sample, by illustrating that the derived spectral coordinates carry an unprecedented amount of information.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2020

Dimensionality Reduction of SDSS Spectra with Variational Autoencoders

High-resolution galaxy spectra contain much information about galactic physics, but the high dimensionality of these spectra makes it difficult to fully utilize the information they contain. We apply variational autoencoders (VAEs), a nonlinear dimensionality reduction technique, to a sample of spectra from the Sloan Digital Sky Survey (SDSS). In contrast to principal component analysis (PCA), a widely used technique, VAEs can capture nonlinear relationships between latent parameters and the data. We find that a VAE can reconstruct the SDSS spectra well with only six latent parameters, outperforming PCA with the same number of components. Different galaxy classes are naturally separated in this latent space, without class labels having been given to the VAE. The VAE latent space is interpretable because the VAE can be used to make synthetic spectra at any point in latent space. For example, making synthetic spectra along tracks in latent space yields sequences of realistic spectra that interpolate between two different types of galaxies. Using the latent space to find outliers may yield interesting spectra: in our small sample, we immediately find unusual data artifacts and stars misclassified as galaxies. In this exploratory work, we show that VAEs create compact, interpretable latent spaces that capture nonlinear features of the data. While a VAE takes substantial time to train (≈1 day for 48,000 spectra), once trained, VAEs can enable the fast exploration of large astronomical data sets.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2017

Timing and Spectral Study of IGR J19294+1816 with the RXTE: The Discovery of Cyclotron Features

The Rossi X-Ray Timing Explorer/Proportional Counter Array (PCA) observations of IGR J19294+1816 covering two outburst episodes are reported. The first outburst happened during MJD 54921-54925 (2009 C.E.), and the second one happened during MJD 55499–55507 (2010 C.E.). In both cases, the PCA observations were made during the decay phase of the outburst, with the source exhibiting a temporal and spectral evolution with the change in flux. At the bright flux level, an absorption feature at 35.5 keV is detected in the spectra, which may be attributed to the Cyclotron Resonance Scattering Feature corresponding to a magnetic field of B=4.13×10{sup 12} Gauss. This is also detected at a lower significance in two other observations. In addition, an Fe line emission at 6.4 keV is prominently detected during the highest flux. X-ray pulsations are detected in 9 out of 10 observations; no pulsations were found in the observation with the lowest flux level. During this observation with the lowest flux, the pulsation phenomenon becomes detectable only at the soft X-ray bands.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

The development of rainfall retrievals from radar at Darwin

Abstract. The U.S. Department of Energy Atmospheric Radiation Measurement program Tropical Western Pacific site hosted a C-band polarization (CPOL) radar in Darwin, Australia. It provides 2 decades of tropical rainfall characteristics useful for validating global circulation models. Rainfall retrievals from radar assume characteristics about the droplet size distribution (DSD) that vary significantly. To minimize the uncertainty associated with DSD variability, new radar rainfall techniques use dual polarization and specific attenuation estimates. This study challenges the applicability of several specific attenuation and dual-polarization-based rainfall estimators in tropical settings using a 4-year archive of Darwin disdrometer datasets in conjunction with CPOL observations. This assessment is based on three metrics: statistical uncertainty estimates, principal component analysis (PCA), and comparisons of various retrievals from CPOL data. The PCA shows that the variability in R can be consistently attributed to reflectivity, but dependence on dual-polarization quantities was wavelength dependent for 1 10mmh-1. Rainfall estimates during these conditions primarily originate from deep convective clouds with median drop diameters greater than 1.5 mm. An uncertainty analysis and intercomparison with CPOL show that a Colorado State University blended technique for tropical oceans, with modified estimators developed from video disdrometer observations, is most appropriate for use in all cases, such as when 1 10mmh-1 (deeper convective rain).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Targeted alpha therapy in a systemic mouse model of prostate cancer - a feasibility study

225 Ac-PSMA-617 targeted-therapy has demonstrated efficacy in 75-85% of patients; however, responses are not durable. We aimed to establish translatable mouse models of disseminated prostate cancer (PCa) to evaluate effectiveness of 225 Ac-PSMA-617 at various disease stages. Methods: C4-2, C4-2B, or 22Rv1 cells were injected into the left ventricle of male NSG mice. Disease progression was monitored using bioluminescence imaging (BLI). For treatment, mice were injected with 40 kBq 225 Ac-PSMA-617 at one (early treatment cohort) or three weeks (late treatment cohort) post-inoculation. Treatment efficacy was monitored by BLI of whole-body tumor burden. Mice were sacrificed based on body conditioning score. Results: C4-2 cells yielded metastases in liver, lungs, spleen, stomach, bones, and brain - achieving a clinically relevant model of widespread metastatic disease. The disease burden in the early treatment cohort was stable over 27 weeks in 5/9 mice and progressive in 4/9 mice. These mice were sacrificed due to brain metastases. Median survival of the late treatment cohort was superior to controls (13 vs. 7 weeks; p<0.0001) but inferior to that in the early treatment cohort (13 vs. 27 weeks; p<0.001). Late cohort mice succumbed to extensive liver involvement. The 22Rv1 and C4-2B systemic models were not used for treatment due to high kidney metastatic burden or low take rate, respectively. Conclusion: C4-2 cells reproduced metastatic cancer spread most relevantly. Early treatment with 225 Ac-PSMA-617 prevented liver metastases and led to significant survival benefit. Late treatment improved survival without reducing tumor burden in the liver, the main site of metastasis. The current findings suggest that early 225 Ac-PSMA-617 intervention is more efficacious in the setting of widespread metastatic PCa.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗
DOE OSTI2021

Vision, challenges and opportunities for a Plant Cell Atlas

With growing populations and pressing environmental problems, future economies will be increasingly plant-based. Now is the time to reimagine plant science as a critical component of fundamental science, agriculture, environmental stewardship, energy, technology and healthcare. This effort requires a conceptual and technological framework to identify and map all cell types, and to comprehensively annotate the localization and organization of molecules at cellular and tissue levels. This framework, called the Plant Cell Atlas (PCA), will be critical for understanding and engineering plant development, physiology and environmental responses. A workshop was convened to discuss the purpose and utility of such an initiative, resulting in a roadmap that acknowledges the current knowledge gaps and technical challenges, and underscores how the PCA initiative can help to overcome them.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2017

Distinction of saffron cod ( Eleginus gracilis ) from several other gadid species by using microsatellite markers

Nine microsatellite loci isolated in saffron cod ( Eleginus gracilis ) have potential applications for population genetics. Polymerase chain reaction products of samples of E. gracilis from northwestern Alaska amplified reliably, produced only one or two microsatellite bands, and had no apparent homozygote excess. A collection of E. gracilis sampled in the Gulf of Alaska (GOA) near Kodiak Island did not amplify reliably at one locus, and allele frequency profiles clustered distinctly (with principal component analysis [PCA]) from the northwestern Alaska collection. Northwestern Alaska and GOA E. gracilis collections were genetically different (on the basis of a standardized genetic differentiation measure [ G ' ST ]=0.313, chord distance [ D chord ]=0.078, P<0.0001) and differed in expected aver-age heterozygosities at shared loci (0.859 and 0.689, respectively). We tested the microsatellite primers on other gadid species endemic to the northern Pacific Ocean, Bering Sea, and Arctic Ocean for cross-species amplification. Not all loci amplified reliably in navaga ( E. nawaga ), Pacific tomcod ( Microgadus proximus ), Arctic cod ( Boreogadus saida ), Pacific cod ( Gadus macrocephalus ), or walleye pollock ( G. chalcogrammus ). Reliable loci varied in microsatellite size profiles and produced distinct PCA clusters and accurate genotype assignments that allowed accurate species identification. Furthermore the identifications support previous morphological and genetically determined systematic classifications and distinguished the geographically separated collections of E. gracilis .

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Study of the effect of the trancription factor SARO_RS14285 in aromatics degradation in Novosphingobium aromaticivorans

Novosphingobium aromaticivorans DSM12444 is a bacterium capable of catabolizing several lignin aromatics. A main degradation pathway for these compounds is the protocatechuate (PCA) meta-cleavage. Nevertheless, the transcriptional regulation of this pathway is still unknown. Immediately upstream of the genes encoding the enzymes for this pathway, the LysR-type transcription factor (LTTF) SARO_RS14285 was identified. To evaluate the functionality of this LTTF, a deletion mutant was constructed. A transcriptomic analysis of the mutant strain cultured in several aromatic compounds is included in this report. Overall design: RNA-seq profiling of the WT and the deletion mutant cultured in minimal medium with glucose and one of the following aromatics: protocatechuic acid (PCA), 4-coumaric acid (4-CA), vanillic acid (VA) or syringic acid (SA).

aromatics↗
NASA NTRS1964

Radio Noise Problems in Arctic Regions

Three main types of radio noise should be considered when establishing noise levels for communication purposes or in experiments utilizing radio techniques in Arctic regions. These are atmospheric and man-made noise, and precipitation static. National Bureau of Standards radio noise data obtained hourly at Arctic and Antarctic stations on eight .fixed frequencies between 51 kc and 20 Mc/s are analyzed to show the characteristics of the three types. The diurnal and seasonal variations of atmospheric radio noise at high latitudes are explainable in terms of changes in propagation factors and in the distribution of world thunderstorm activity. In both northern and southern Arctic regions atmospheric noise decreases during polar cap absorption (PCA), most markedly in the h.f. band. The probable magnitude of man-made noise in the h.f. band is estimated from data taken during PCA, when atmospheric noise is absent. At Thule man-made noise on 2.5 and 5 Mc/s appears to be 57 and 49 dB above kTB (where kTB is antenna thermal noise power), respectively, while at Byrd Station the values are about 20 and 12 dB respectively. Precipitation static is generated on exposed antennas during periods of blowing snow (blizzards). The noise power magnitude can be at least 50 dB above man-made and atmospheric levels, but the maximum enhancement cannot be ascertained because of missing data. In winter and spring months at Byrd Station radio data dependent upon exposed antennas may be lost 10-30 per cent of the time due to precipitation static alone.

Radio Noise↗
NASA NTRS1975

Development of thermal stratification and destratification scaling concepts. Volume 2: Stratification

Temperature and pressure data obtained from the saturated Freon 113 PCA closed-tank stratification tests are presented. The data presented in tabular form are the test conditions, sensible heat values, and Freon 113 PCA liquid and ullage (vapor) properties. Also included, are graphical representations of the liquid bulk temperature and pressure histories, and dimensionless liquid-ullage delta-temperature profiles. Modified Grashof numbers and Fourier number-history data are also presented graphically.

Lovrich, T. N.↗
NASA NTRS1975

Access of solar electrons to the polar regions

Riometric and forward-scatter radio-wave absorption measurements at high polar latitudes in both hemispheres are compared with absorption calculations based on satellite observations in the magnetosheath to determine whether a north-south asymmetry in the solar electron flux occurred during a polar-cap absorption (PCA) event. Detection of solar electrons in interplanetary space is shown to have occurred simultaneously with detection of HF radio-wave absorption, indicating that the initial stage of the PCA was due to the arrival of solar electrons. A north-south asymmetry is observed in the electron flux, and it is found that the flux precipitating over the South Pole did not exceed the mean unidirectional intensity of the electrons detected in space. The ratio between fluxes in the low and high polar latitude regions over Antarctica during a period of solar electron anisotropy is found to be comparable with that obtained during periods of isotropy. These results are shown to be consistent with the idea of an open magnetosphere and with the conclusion that an anisotropic solar electron flux may be rendered isotropic at the magnetopause.

Nielsen, E.↗
NASA NTRS1980

Atmospheric Emission Photometric Imaging on Spacelab (AEPI)

Two parallel detector systems are used for atmospheric emission photometric emission. The top system is a TV system using the image intensified S.E.C. tube as the detector. The bottom system, the photon counting array (P.C.A.), uses a microchannel plate intensified anode array tube and is equivalent to a 100 channel photomultiplier. For the television, the filters are selected by means of a filter wheel set. The field of view of the is interchangeable between 20 and 6 degrees, by means of a moveable prism. The quartz window mu channel plate intensifier is fiber optically coupled to a 40-25 demagnifying tube which is in turn coupled to the S.E.C. tube. The PCA channel has a fixed field of view of 4 deg and a remote control interchangeable photometric converter optics which converts the imaging array into a multichannel photometer. The mu channel plate array tube amplifies the photons into detectable counts for the PCA electronics. The entire system is pointed by a two axis gimbal. The flight equipment to be acquired consists of a gyro package and an interactive flight control unit panel. The gyro package is necessary because of the inadequate attitude reference supplied by the current Spacelab systems.

Mende, S. B.↗