239 Pu and 235 U PFNS and nu-bar covariances [Slides]
Abstract not provided.
73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
SEARCH · Engineering Papers
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Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective
The 16S and 23S rRNA higher-order structures inferred from comparative analysis are now quite refined. The models presented here differ from their immediate predecessors only in minor detail. Thus, it is safe to assert that all of the standard secondary-structure elements in (prokaryotic) rRNAs have been identified, with approximately 90% of the individual base pairs in each molecule having independent comparative support, and that at least some of the tertiary interactions have been revealed. It is interesting to compare the rRNAs in this respect with tRNA, whose higher-order structure is known in detail from its crystal structure (36) (Table 2). It can be seen that rRNAs have as great a fraction of their sequence in established secondary-structure elements as does tRNA. However, the fact that the former show a much lower fraction of identified tertiary interactions and a greater fraction of unpaired nucleotides than the latter implies that many of the rRNA tertiary interactions remain to be located. (Alternatively, the ribosome might involve protein-rRNA rather than intramolecular rRNA interactions to stabilize three-dimensional structure.) Experimental studies on rRNA are consistent to a first approximation with the structures proposed here, confirming the basic assumption of comparative analysis, i.e., that bases whose compositions strictly covary are physically interacting. In the exhaustive study of Moazed et al. (45) on protection of the bases in the small-subunit rRNA against chemical modification, the vast majority of bases inferred to pair by covariation are found to be protected from chemical modification, both in isolated small-subunit rRNA and in the 30S subunit. The majority of the tertiary interactions are reflected in the chemical protection data as well (45). On the other hand, many of the bases not shown as paired in Fig. 1 are accessible to chemical attack (45). However, in this case a sizeable fraction of them are also protected against chemical modification (in the isolated rRNA), which suggests that considerable higher-order structure remains to be found (although all of it may not involve base-base interactions and so may not be detectable by comparative analysis). The agreement between the higher-order structure of the small-subunit rRNA and protection against chemical modification is not perfect, however; some bases shown to covary canonically are accessible to chemical modification (45).(ABSTRACT TRUNCATED AT 400 WORDS).
Review↗
Unraveling the effects of management and climate on carbon fluxes of U.S. croplands using the USDA Long-Term Agroecosystem (LTAR) network
Understanding the carbon fluxes and dynamics from a broad range of agricultural systems has the potential to improve our ability to increase carbon sequestration while maintaining crop yields. Short-term, single-location studies have limited applicability, but long-term data from a network of many locations can provide a broader understanding across gradients of climate and management choices. Here we examine eddy covariance measured carbon dioxide (CO 2 ) fluxes from cropland sites across the United States Department of Agriculture's Long-Term Agroecosystem Research (LTAR) network. The dataset was collected between 2001 and 2020, spanning 13 sites for a total of 182 site-years. Average seasonal patterns of net ecosystem CO 2 exchange (NEE), gross primary productivity (GPP), and ecosystem respiration (R eco ) were determined, and subsequent regression analysis on these “flux climatologies” was used to identify relationships to mean annual temperature (MAT), mean annual precipitation (MAP), cropping systems, and management practices. At rainfed sites, carbon fluxes were better correlated with MAP (r2 ≤ 0.5) than MAT (r2 ≤ 0.22). Net carbon balance was different among cropping systems (p < 0.001), with the greatest net carbon uptake occurring in sugarcane (Saccharum spp. hybrids) and the least in soybean (Glycine max) fields. Crop type had a greater effect on carbon balance than irrigation management at a Nebraska site. Across cropping systems, grain crops often had higher GPP and were more likely to have net uptake when compared to legume crops. This multi-site analysis highlights the potential of the LTAR network to further carbon flux research using eddy covariance measurements.
54 ENVIRONMENTAL SCIENCES↗
Hierarchical off-diagonal low-rank approximation of Hessians in inverse problems, with application to ice sheet model initialization
Obtaining lightweight and accurate approximations of discretized objective functional Hessians in inverse problems governed by partial differential equations (PDEs) is essential to make both deterministic and Bayesian statistical large-scale inverse problems computationally tractable. The cubic computational complexity of dense linear algebraic tasks, such as Cholesky factorization, that provide a means to sample Gaussian distributions and determine solutions of Newton linear systems is a computational bottleneck at large-scale. These tasks can be reduced to log-linear complexity by utilizing hierarchical off-diagonal low-rank (HODLR) matrix approximations. In this work, we show that a class of Hessians that arise from inverse problems governed by PDEs are well approximated by the HODLR matrix format. In particular, we study inverse problems governed by PDEs that model the instantaneous viscous flow of ice sheets. In these problems, we seek a spatially distributed basal sliding parameter field such that the flow predicted by the ice sheet model is consistent with ice sheet surface velocity observations. Here, we demonstrate the use of HODLR Hessian approximation to efficiently sample the Laplace approximation of the posterior distribution with covariance further approximated by HODLR matrix compression. Computational studies are performed which illustrate ice sheet problem regimes for which the Gauss–Newton data-misfit Hessian is more efficiently approximated by the HODLR matrix format than the low-rank (LR) format. We then demonstrate that HODLR approximations can be favorable, when compared to global LR approximations, for large-scale problems by studying the data-misfit Hessian associated with inverse problems governed by the first-order Stokes flow model on the Humboldt glacier and Greenland ice sheet.
97 MATHEMATICS AND COMPUTING↗
Canopy tree mortality depends on the proportion of crown exposed to sunlight, but this effect varies with species' wood density
Abstract Understanding what drives changes in tree mortality as well as the covariates influencing trees' response is a research priority to predict forest responses to global change. Here, we combined drone photogrammetry and ground‐based data to assess the influence of crown exposure to light (relative to total crown area), growth deviations (relative to conspecifics), tree size, and species' wood density (as a surrogate for light‐demanding and shade‐tolerant life‐history strategies) on the mortality of 984 canopy trees in an Amazonterra firmeforest. Trees with lower wood density were less prone to die when their proportion of crown was more exposed to sunlight, but this relationship with relative crown exposure weakened and slightly reversed as wood density increased. Trees growing less than their species average had higher mortality, especially when the species' wood density decreased. The role of wood density in determining the survival of canopy trees under varying light conditions indicates differential responses of light‐demanding versus shade‐tolerant species. Our results highlight the importance of accounting for life‐history strategies, via plant functional types, in vegetation dynamic models aiming to predict forest demography under a rapidly changing climate. Abstract in Spanish is available with online material.
Environmental Sciences & Ecology↗
Quantitative Characterization of Hyper-Local Atmospheric Greenhouse Gas Sources
Atmospheric greenhouse gas (GHG) emissions are often characterized using stationary, tower-based sensors. Ground based sensors reside in the turbulent boundary layer and are subject to intense concentration impulses from hyper-local (<100m) point sources of emissions. These high frequency spikes are often filtered out in broader emission flux studies, losing valuable information about how hyper-local sources influence receptors. In this study, we investigated how empirical atmospheric data can be used to locate and quantify a concurrently measured hyper-local point source in a dense urban setting. An eddy covariance style tower and a low-cost sensor tower were deployed in various locations around an urban, hyper-local CO2/CH4 emissions source (a continuously measured restaurant exhaust vent). A model using different processing and statistical techniques was built to examine the most effective procedures for source isolation, directional location, and emission quantification. Using excess concentrations above a minimum baseline, we identify the source using bivariate polar plots and quantify the relationship between source size, receptor distance, and statistical proxies. Furthermore, we find that varying statistical thresholds allows for identification of less influential sources which are drowned out by larger or closer sources. Finally, we show that large sources can be effectively characterized using low-cost sensors, a valuable outcome informing how networks for monitoring larger areas could be implemented. This work may provide a basis for source identification and monitoring protocols for networks that feature sensors influenced by hyper-local point sources, subject to site-specific assumptions.
54 ENVIRONMENTAL SCIENCES↗
Demonstration of Optimal Benchmark Selection Website and Validation of the q c Coverage Metric Using HEU-SOL-THERM-013-003 Experiment
In the work documented in this interim report, the experiment selection toolkit web site was demonstrated and q C coverage metric methodology was validated for IEU-MET-FAST-002-001, MIX-COMP-THERM 004-004, and HEU-SOL-THERM-013-003 experiments. 𝑞 𝐶 is an information-theoretic measure based on mutual information that quantifies the ability of candidate benchmark experiments to reduce the bias and uncertainty of a target criticality safety application. The metric and an accompanying open-source Python toolkit with a web-based interface were tested against a benchmark set of 425 experiments drawn from the International Criticality Safety Benchmark Evaluation Project Handbook. The interface is hosted at https://edim.covdef.com. It accepts sensitivity data files produced by the TSUNAMI-IP module of the SCALE code system and supports both (i) deterministic analysis using the ENDF/B-VII.0 covariance library and (ii) stochastic analysis based on user-supplied keff samples. Demonstrations on representative applications across a range of material composition, spectrum, and form show that q C -guided benchmark selection achieves greater uncertainty reduction with fewer experiments and yields more stable posterior bias and uncertainty estimates than traditional similarity coefficient ( c k )–based selection, while also capturing valuable low-ck experiments that one-to-one metrics overlook.
Abdel-khalik, Hany S. [Indiana Univ.-Purdue Univ. ↗
Design/cost tradeoff studies. Appendix A. Supporting analyses and tradeoffs, book 2. Earth Observatory Satellite system definition study (EOS)
Attitude reference systems for use with the Earth Observatory Satellite (EOS) are described. The systems considered are fixed and gimbaled star trackers, star mappers, and digital sun sensors. Covariance analyses were performed to determine performance for the most promising candidate in low altitude and synchronous orbits. The performance of attitude estimators that employ gyroscopes which are periodically updated by a star sensor is established by a single axis covariance analysis. The other systems considered are: (1) the propulsion system design, (2) electric power and electrical integration, (3) thermal control, (4) ground data processing, and (5) the test plan and cost reduction aspects of observatory integration and test.
Source record↗
K-distribution and polarimetric terrain radar clutter
A multivariate K-distribution is proposed to model the statistics of fully polarimetric radar data from earth terrain with polarizations HH, HV, VH, and VV. In this approach, correlated polarizations of radar signals, as characterized by a covariance matrix, are treated as the sum of N n-dimensional random vectors; N obeys the negative binomial distribution with a parameter alpha and mean N-bar. Subsequently, an n-dimensional K-distribution, with either zero or nonzero mean, is developed in the limit of infinite N-bar or illuminated area. The probability density function (PDF) of the K-distributed vector normalized by its Euclidean norm is independent of the parameter alpha and is the same as that derived from a zero-mean Gaussian-distributed random vector.
Yueh, S. H.↗
An approximate Kalman filter for ocean data assimilation: An example with an idealized Gulf Stream model
A practical method of data assimilation for use with large, nonlinear, ocean general circulation models is explored. A Kalman filter based on approximation of the state error covariance matrix is presented, employing a reduction of the effective model dimension, the error's asymptotic steady state limit, and a time-invariant linearization of the dynamic model for the error integration. The approximations lead to dramatic computational savings in applying estimation theory to large complex systems. We examine the utility of the approximate filter in assimilating different measurement types using a twin experiment of an idealized Gulf Stream. A nonlinear primitive equation model of an unstable east-west jet is studied with a state dimension exceeding 170,000 elements. Assimilation of various pseudomeasurements are examined, including velocity, density, and volume transport at localized arrays and realistic distributions of satellite altimetry and acoustic tomography observations. Results are compared in terms of their effects on the accuracies of the estimation. The approximate filter is shown to outperform an empirical nudging scheme used in a previous study. The examples demonstrate that useful approximate estimation errors can be computed in a practical manner for general circulation models.
Fukumori, Ichiro↗
Interpreting SBUV Smoothing Errors: an Example Using the Quasi-biennial Oscillation
The Solar Backscattered Ultraviolet (SBUV) observing system consists of a series of instruments that have been measuring both total ozone and the ozone profile since 1970. SBUV measures the profile in the upper stratosphere with a resolution that is adequate to resolve most of the important features of that region. In the lower stratosphere the limited vertical resolution of the SBUV system means that there are components of the profile variability that SBUV cannot measure. The smoothing error, as defined in the optimal estimation retrieval method, describes the components of the profile variability that the SBUV observing system cannot measure. In this paper we provide a simple visual interpretation of the SBUV smoothing error by comparing SBUV ozone anomalies in the lower tropical stratosphere associated with the quasi-biennial oscillation (QBO) to anomalies obtained from the Aura Microwave Limb Sounder (MLS). We describe a methodology for estimating the SBUV smoothing error for monthly zonal mean (mzm) profiles. We construct covariance matrices that describe the statistics of the inter-annual ozone variability using a 6 yr record of Aura MLS and ozonesonde data. We find that the smoothing error is of the order of 1percent between 10 and 1 hPa, increasing up to 15-20 percent in the troposphere and up to 5 percent in the mesosphere. The smoothing error for total ozone columns is small, mostly less than 0.5 percent. We demonstrate that by merging the partial ozone columns from several layers in the lower stratosphere/troposphere into one thick layer, we can minimize the smoothing error. We recommend using the following layer combinations to reduce the smoothing error to about 1 percent: surface to 25 hPa (16 hPa) outside (inside) of the narrow equatorial zone 20 S-20 N.
ozone profile retrievals↗
An Approximate Kalman Filter for Ocean Data Assimilation; An Example with an Idealized Gulf Stream Model
A practical method of data assimilation for use with large, nonlinear, ocean general circulation models is explored. A Kalman filter based on approximations of the state error covariance matrix is presented, employing a reduction of the effective model dimension, the error's asymptotic steady-state limit, and a time-invariant linearization of the dynamic model for the error integration. The approximations lead to dramatic computational savings in applying estimation theory to large complex systems. We examine the utility of the approximate filter in assimilating different measurement types using a twin experiment of an idealized Gulf Stream. A nonlinear primitive equation model of an unstable east-west jet is studied with a state dimension exceeding 170,000 elements. Assimilation of various pseudo measurements is examined, including velocity, density, and volume transport at localized arrays, and realistic distributions of satellite altimetry and acoustic tomography observations. Results are compared in terms of their effects on the accuracies of the estimation. The approximate filter is shown to outperform a previous study that used an empirical nudging scheme. The examples demonstrate that useful approximate estimation errors can be computed in a practical manner for general circulation models.
['Kalman↗
Sterile Neutrino Search with the NOvA Detectors
NOvA is a two-detector experiment designed to observe neutrino oscillations from νµ toνe flavor states. Additionally, the location of the NOvA Near Detector is well situated to additionally observe short base line oscillations to sterile neutrino states. We expand upon previous NOvA sterile neutrino searches by using a covariance matrix fitting technique. This analysis is the first with NOvA to directly include neutrino interactions in the Near Detector while fitting the data. The NOvA Near Detector’s greater statistics to better constrain our Far Detector uncertainties in addition to increasing the range of Δ m$^2_{41}$ to which we are sensitive.
72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
Kalman Filter for Spinning Spacecraft Attitude Estimation
This paper presents a Kalman filter using a seven-component attitude state vector comprising the angular momentum components in an inertial reference frame, the angular momentum components in the body frame, and a rotation angle. The relatively slow variation of these parameters makes this parameterization advantageous for spinning spacecraft attitude estimation. The filter accounts for the constraint that the magnitude of the angular momentum vector is the same in the inertial and body frames by employing a reduced six-component error state. Four variants of the filter, defined by different choices for the reduced error state, are tested against a quaternion-based filter using simulated data for the THEMIS mission. Three of these variants choose three of the components of the error state to be the infinitesimal attitude error angles, facilitating the computation of measurement sensitivity matrices and causing the usual 3x3 attitude covariance matrix to be a submatrix of the 6x6 covariance of the error state. These variants differ in their choice for the other three components of the error state. The variant employing the infinitesimal attitude error angles and the angular momentum components in an inertial reference frame as the error state shows the best combination of robustness and efficiency in the simulations. Attitude estimation results using THEMIS flight data are also presented.
Markley, F. Landis↗
Kalman Filter for Spinning Spacecraft Attitude Estimation
This paper presents a Kalman filter using a seven-component attitude state vector comprising the angular momentum components in an inertial reference frame, the angular momentum components in the body frame, and a rotation angle. The relatively slow variation of these parameters makes this parameterization advantageous for spinning spacecraft attitude estimation. The filter accounts for the constraint that the magnitude of the angular momentum vector is the same in the inertial and body frames by employing a reduced six-component error state. Four variants of the filter, defined by different choices for the reduced error state, are tested against a quaternion-based filter using simulated data for the THEMIS mission. Three of these variants choose three of the components of the error state to be the infinitesimal attitude error angles, facilitating the computation of measurement sensitivity matrices and causing the usual 3x3 attitude covariance matrix to be a submatrix of the 6x6 covariance of the error state. These variants differ in their choice for the other three components of the error state. The variant employing the infinitesimal attitude error angles and the angular momentum components in an inertial reference frame as the error state shows the best combination of robustness and efficiency in the simulations. Attitude estimation results using THEMIS flight data are also presented.
Markley, F. Landis↗
Uncertainties in turbulent statistics and fluxes of CO2 associated with density effect corrections
Density effect corrections (DEC) are applied to adjust raw CO2 fluxes measured by eddy covariance (EC) systems with open-path gas analyzers. DEC is also required for adjusting the measured CO2 concentration fluctuations to obtain the adjusted CO2 for analyzing turbulent statistics or quantifying fluxes. However, our data show that the power spectra of the DEC-adjusted CO2 are distorted in the high frequency range, as compared with the corresponding spectra of temperature and water vapor density. This contradicts the similarity behavior of scalars, as suggested by Monin-Obukhov similarity theory. It is demonstrated that such a distortion is caused by the DEC-induced spikes in the DEC-adjusted CO2, altering turbulent statistics of CO2 and scalar similarity between CO2 and other scalars. Our results suggest that CO2 fluxes are overestimated by applying DEC especially under high Bowen ratio conditions, potentially leading to substantial uncertainties in long-term ecosystem carbon exchange in dry regions.
Gao, Zhongming↗
Wavenumber-frequency deconvolution of aeroacoustic microphone phased array data of arbitrary coherence
Deconvolution of aeroacoustic data acquired with microphone phased arrays is a computationally-challenging task for distributed sources with arbitrary coherence. A new technique for performing such deconvolution is proposed. This technique relies on analysis of the array data in the wavenumber-frequency domain, allowing for fast convolution and reduced storage requirements when compared to traditional coherent deconvolution. A positive semidefinite constraint for the iterative deconvolution procedure is implemented and shows improved behavior in terms of quantifiable convergence metrics when compared to a standalone covariance inequality constraint. A series of simulations validates the method's ability to resolve coherence and phase angle relationships between partially-coherent sources, as well as determines convergence criteria for deconvolution analysis. Simulations for point sources near the microphone phased array show potential for handling such data in the wavenumber-frequency domain. In particular, a physics-based integration boundary calculation is described, and can successfully isolate sources and track the appropriate integration bounds with and without the presence of flow. Magnitude and phase relationships between multiple sources are successfully extracted. Limitations of the deconvolution technique are determined from the simulations, particularly in the context of a simulated acoustic field in a closed test section wind tunnel with strong boundary layer contamination. A final application to a trailing edge noise experiment conducted in an open-jet wind tunnel matches best estimates of acoustic levels from traditional calculation methods and qualitatively assesses the coherence characteristics of the trailing edge noise source.
phased array↗
Off-shell pion properties: Electromagnetic form factors and light-front wave functions
The off-shell pion electromagnetic form factors are explored with corresponding off-shell light-front wave functions modeled by constituent quark and antiquark. We apply the Mandelstam approach for the microscopic computation of the form factors relating the model parameters with the pion decay constant and charge radius. Analyzing the existing data on the cross sections for the Sullivan process, 1 H(e,e',π + )n, Charged pion form factor between Q 2 = 0.60, and 2.45 GeV 2 . I. Measurements of the cross section for the 1 H(e,e'π + )n reaction, we extract the off-shell pion form factor using the relation derived from the generalized Ward-Takahashi identity for the pion electromagnetic current. They are compared with our previous results from exactly solvable manifestly covariant model of a (3+1)-dimensional fermion field theory. We find that the adopted constituent quark model reproduces the extracted off-shell form factor F 1 (Q 2 ,t) from the experimental data within a few percent difference and matches well with our previous theoretical simulation which exhibits a variation of about 10% for the extracted off-shell pion form factor g(Q 2 ,t). We also identify the pion valence parton distribution function (PDF) and transverse momentum distribution (TMD) in terms of the light-front wave function and discuss their off-shell properties.
72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗