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At least 973 records · Page 54

Detecting differential protein abundance by combining peptide level P -values

The majority of methods for detecting differentially abundant proteins between samples in label-free LC-MS bottom-up proteomics experiments rely on statistically testing inferred protein abundances derived from peptide ionization intensities or averaging peptide level statistics. Here in this paper, we statistically test peptide ionization intensities directly and combine the resulting dependent P-values using the Empirical Brown's Method (EBM), avoiding error introduced through the estimation of protein abundances or summarizing test statistics. We show that on a spike-in proteomics dataset, a peptide level approach using EBM outperforms differential abundance detection using a protein level approach and several analysis workflows, including MSstats. Additionally, we demonstrate the effectiveness of this approach by detecting enriched proteins from an activity-based protein profiling dataset.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

A Chemical Dynamics Study of the Reaction of the Methylidyne Radical (CH, X 2 Π) with Dimethylacetylene (CH 3 CCCH 3 , X 1 A 1g )

The gas-phase reaction of the methylidyne (CH; X 2 Π) radical with dimethylacetylene (CH 3 CCCH 3 ; X 1 A 1g ) was studied at a collision energy of 20.6 kJ mol -1 under single collision conditions with experimental results merged with ab initio calculations of the potential energy surface (PES) and ab initio molecule dynamics (AIMD) simulations. Here, the crossed molecular beams experiment reveals that the reaction proceeds barrierless via indirect scattering dynamics through long-lived C 5 H 7 reaction intermediate(s) ultimately dissociating to C 5 H 6 isomers along with atomic hydrogen with atomic hydrogen predominantly released from the methyl groups as verified by replacing the methylidyne with the D1-methylidyne reactant. AIMD simulations reveal that the reaction dynamics are statistical leading predominantly to p28 (1-methyl-3-methylene-cyclopropene, 13 %) and p8 (1-penten-3-yne, 81 %) plus atomic hydrogen with a significant amount of available energy being channeled into the internal excitation of the polyatomic reaction products.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Dust pollution in China affected by different spatial and temporal types of El Niño

Dust is an important aerosol affecting air quality in China in the winter and spring seasons. Dust in China is potentially influenced by the interannual climate variability associated with El Niño. Here, the impacts of El Niño with different temporal and spatial types on dust pollution in boreal winter and spring in China and the potential mechanisms are investigated using a state-of-the-art Earth system model (E3SMv1). We find that the eastern Pacific (EP) and central Pacific (CP) El Niño both increase wintertime dust concentrations by 5–50 µg m –3 over central-eastern China. Due to a stronger wind and lower relative humidity, which favor dust emissions near sources, and a strengthened northwesterly and reduced precipitation, which are conducive to dust transport, dust concentrations during the CP El Niño are 5–20 µg m –3 higher in northern China than during the EP El Niño, although the changes are mostly insignificant. El Niño with a short duration (SD) increases boreal winter dust concentrations by 20–100 µg m –3 over northern China relative to the climatological mean, while there is a decrease of 5–50 µg m –3 during the long-duration (LD) El Niño, which is also related to the El Niño-induced changes in atmospheric circulation, precipitation, and relative humidity. In the following spring season, all types of El Niño events enhance dust over northern China, but only the increase during the LD El Niño is statistically significant, suggesting that the weaker intensity but longer duration of the LD El Niño events can significantly affect spring dust in China. Our results contribute to the current knowledge of the influence of El Niño on dust pollution, which has profound implications for air pollution control and dust storm prediction.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Unsupervised Clustering and Supervised Regression Learning to Select High Temperature Oxidation-Resistant Materials

High temperature oxidation and corrosion degradation mechanisms dictate the lifetime of materials critical to energy production. The combination of modeling and experimental approaches such as machine learning (ML) and data analytics, with sufficient experimental data, can accelerate the development of new materials while limiting its cost. In the present work, ML will be applied to two high temperature oxidation data libraries (Oak Ridge National Laboratory and National Air and Space Administration) that comprised of about 5000 mass change sample datasheets for a variety of materials and temperatures in dry air and air + 10 % H2O. A python code was developed to prepare the data for machine learning by collecting and formatting oxidation rate constants, alloy compositions and environment of exposure into a single data frame. Scikit-learn library and Statistics and Machine Learning Toolbox within MathWorks were then used to perform unsupervised clustering and supervised regression learning. The impact of dataset distribution on the performance of the developed ML models was evaluated. Potential strategies to improve the predictions and enhance extrapolative capability of the previously trained model were investigated.

Romedenne, Marie [ORNL] (ORCID:0000000317936561)↗

Data Analytics Applied to Coal Fired Boilers for Detecting Leaks

Data analytics were used to detect boiler leaks from five different coal-fired boilers including both subcritical and supercritical systems. Discriminant functions were developed that detected leaks up to two weeks prior to forced plant shutdowns for repairs. The leaks were identified to occur at different sections of the boiler for each plant, including waterwalls, economizer and superheater using conventional process measurement data. Leaking conditions were detected with a high degree of confidence (≪ 1% misclassified observations) and were able to distinguish normal operations from those time periods with steam leaks even while operating the power plants in power cycling mode.Multivariable statistical analyses, including Principal Component (PCA), cluster, and Fischer Discriminant Analysis (FDA) were used to characterize the leak occurrence. Normal and operational states with steam leaks were provided in the original process datasets. These datasets were split into two different groups for training and validation purposes. The data were sorted chronologically, and every third observation was assigned to training the Discriminant Function Model (DFM) while the rest were reserved for validation. PCA was used to reduce dimensionality of the original datasets. Canonical and FDA analyses were used to investigate the relationship between process variables. The outcome of the analyses revealed that nearly 35,000 observations were classified correctly; less than 0.05% of total observations were misclassified to be leaking, i.e. both false positives and false negatives.

Indrawan, Natarianto↗

Rare earth element enrichment in coal and coal-adjacent strata of the Uinta Region, Utah and Colorado

This study aims to quantify rare earth element enrichment within coal and coal-adjacent strata in the Uinta Region of central Utah and western Colorado. Rare earth elements are a subset of critical minerals as defined by the U.S. Geological Survey. These elements are used for a wide variety of applications, including renewable energy technology in the transition toward carbon-neutral energy. While rare earth element enrichment has been associated with Appalachian coals, there has been a more limited evaluation of western U.S. coals. Here, samples from six active mines, four idle/historical mines, four mine waste piles, and seven stratigraphically complete cores within the Uinta Region were geochemically evaluated using portable X-ray fluorescence ( n = 3,113) and inductively coupled plasma-mass spectrometry ( n = 145) elemental analytical methods. Results suggest that 24%–45% of stratigraphically coal-adjacent carbonaceous shale and siltstone units show rare earth element enrichment (>200 ppm), as do 100% of sampled igneous material. A small subset (5%–8%) of coal samples display rare earth element enrichment, specifically in cases containing volcanic ash. This study proposes two multi-step depositional and diagenetic models to explain the enrichment process, requiring the emplacement and mobilization of rare earth element source material due to hydrothermal and other external influences. Historical geochemical evaluations of Uinta Region coal and coal-adjacent data are sparse, emphasizing the statistical significance of this research. These results support the utilization of active mines and coal processing waste piles for the future of domestic rare earth element extraction, offering economic and environmental solutions to pressing global demands.

Coe, Haley H.↗

Number Partitioning via Quantum Adiabatic Computation

We study both analytically and numerically the complexity of the adiabatic quantum evolution algorithm applied to random instances of combinatorial optimization problems. We use as an example the NP-complete set partition problem and obtain an asymptotic expression for the minimal gap separating the ground and exited states of a system during the execution of the algorithm. We show that for computationally hard problem instances the size of the minimal gap scales exponentially with the problem size. This result is in qualitative agreement with the direct numerical simulation of the algorithm for small instances of the set partition problem. We describe the statistical properties of the optimization problem that are responsible for the exponential behavior of the algorithm.

Smelyanskiy, Vadim N.↗

Labile Fe(III) supersaturation controls nucleation and properties of product phases from Fe(II)-catalyzed ferrihydrite transformation

We report Fe(II)-catalyzed ferrihydrite (Fh) transformation to more crystalline iron (oxyhydr)oxide phases is a widely occurring geochemical process which has been extensively studied as a function of Fe(II)/Fh ratios at fixed Fh loadings. However, recent isolation of an intermediate Fe(III) species resulting from Fe(II)-Fh contact that facilitates transformation by dissolution/reprecipitation suggests that the kinetics and properties of product phases will instead depend mostly on its rate of accumulation to a critical concentration, consistent with principles in the classical nucleation theory (CNT). This suggests a dependence both on the loading of Fe(II) on the surface, which controls the rate of labile Fe(III) formation, as well as the available volume of solution, which also impacts how fast it can achieve its critical concentration to nucleate product phases. To specifically examine the latter effect, here we studied transformation of 15 mg Fh in 1 mM FeSO 4 solutions at pH 7.2 in batch suspensions of 30 mL, 150 mL, and 450 mL volumes. Time-dependent concentrations of aqueous Fe(II), surface-associated Fe(II), and resulting labile Fe(III) were monitored along with bulk solids characterization as a function of time. Transmission electron microscopy (TEM) was used to visualize the evolution of phases at identical locations on TEM grids. The collective results show that the rates of Fh loss and emergence of product lepidocrocite (Lp) and goethite (Gt) as well as their phase proportions, nucleation mode and morphological properties depend directly on the rate of accumulation of the labile Fe(III) precursor to its critical concentration, which in our experiments was controlled simply by varying the available volume of solution into which it enters. Statistical analyses of TEM image data suggest that while both heterogeneous and homogeneous nucleation occurred in all experiments, the former was increasingly favored at lower Fh/solution ratio due to its lower nucleation barrier being more favorable at attendant lower supersaturations of Fe(III).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Monte Carlo MP2-F12 for Noncovalent Interactions: The C 60 Dimer

A scalable stochastic algorithm is presented that can evaluate explicitly correlated (F12) second-order many-body perturbation (MP2) energies of weak, noncovalent, intermolecular interactions. It first transforms the formulas of the MP2 and F12 energy differences into a short sum of high-dimensional integrals of Green’s functions in real space and imaginary time. Furthermore, these integrals are then evaluated by the Monte Carlo method augmented by parallel execution, redundant-walker convergence acceleration, direct-sampling autocorrelation elimination, and control-variate error reduction. By sharing electron-pair walkers across the supermolecule and its subsystems spanned by the joint basis set, the statistical uncertainty is reduced by one to 2 orders of magnitude in the MP2 binding energy corrected for the basis-set incompleteness and superposition errors. The method predicts the MP2-F12/aug-cc-pVDZ binding energy of 19.1 ± 4.0 kcal mol –1 for the C 60 dimer at the center distance of 9.748 Å.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Gas-Phase Formation of Fulvenallene (C 7 H 6 ) via the Jahn–Teller Distorted Tropyl (C 7 H 7 ) Radical Intermediate under Single-Collision Conditions

The fulvenallene molecule (C 7 H 6 ) has been synthesized via the elementary gas-phase reaction of the methylidyne radical (CH) with the benzene molecule (C 6 H 6 ) on the doublet C 7 H 7 surface under single collision conditions. The barrier-less route to the cyclic fulvenallene molecule involves the addition of the methylidyne radical to the π-electron density of benzene leading eventually to a Jahn–Teller distorted tropyl (C 7 H 7 ) radical intermediate and exotic ring opening–ring contraction sequences terminated by atomic hydrogen elimination. The methylidyne-benzene system represents a benchmark to probe the outcome of the elementary reaction of the simplest hydrocarbon radical—methylidyne—with the prototype of a closed-shell aromatic molecule—benzene—yielding nonbenzenoid fulvenallene. Combined with electronic structure and statistical calculations, this bimolecular reaction sheds light on the unusual reaction dynamics of Hückel aromatic systems and remarkable (polycyclic) reaction intermediates, which cannot be studied via classical organic, synthetic methods, thus opening up a versatile path to access this previously largely obscure class of fulvenallenes.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Isomer-resolved unimolecular dynamics of the hydroperoxyalkyl intermediate (•QOOH) in cyclohexane oxidation

The oxidation of cycloalkanes is important in the combustion of transportation fuels and in atmospheric secondary organic aerosol formation. A transient carbon-centered radical intermediate (•QOOH) in the oxidation of cyclohexane is identified through its infrared fingerprint and time- and energy-resolved unimolecular dissociation dynamics to hydroxyl (OH) radical and bicyclic ether products. Although the cyclohexyl ring structure leads to three nearly degenerate •QOOH isomers (β-, γ-, and δ-QOOH), their transition state (TS) barriers to OH products are predicted to differ considerably. Selective characterization of the β-QOOH isomer is achieved at excitation energies associated with the lowest TS barrier, resulting in rapid unimolecular decay to OH products that are detected. A benchmarking approach is employed for the calculation of high-accuracy stationary point energies, in particular TS barriers, for cyclohexane oxidation (C 6 H 11 O 2 ), building on higher-level reference calculations for the smaller ethane oxidation (C 2 H 5 O 2 ) system. The isomer-specific characterization of β-QOOH is validated by comparison of experimental OH product appearance rates with computed statistical microcanonical rates, including significant heavy-atom tunneling, at energies in the vicinity of the TS barrier. Master-equation modeling is utilized to extend the results to thermal unimolecular decay rate constants at temperatures and pressures relevant to cyclohexane combustion.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The Universe at z > 10: predictions for JWST from the universemachine DR1

The James Webb Space Telescope (JWST) is expected to observe galaxies at z > 10 that are presently inaccessible. Here, we use a self-consistent empirical model, the universemachine, to generate mock galaxy catalogues and light-cones over the redshift range z = 0-15. These data include realistic galaxy properties (stellar masses, star formation rates, and UV luminosities), galaxy–halo relationships, and galaxy–galaxy clustering. Mock observables are also provided for different model parameters spanning observational uncertainties at z < 10. We predict that Cycle 1 JWST surveys will very likely detect galaxies with M* > 10 7 M⊙ and/or M 1500 < -17 out to at least z ~ 13.5. Number density uncertainties at z > 12 expand dramatically, so efforts to detect z > 12 galaxies will provide the most valuable constraints on galaxy formation models. Additionally, the faint-end slopes of the stellar mass/luminosity functions at a given mass/luminosity threshold steepen as redshift increases. This is because observable galaxies are hosted by haloes in the exponentially falling regime of the halo mass function at high redshifts. Hence, these faint-end slopes are robustly predicted to become shallower below current observable limits (M* < 10 7 M⊙ or M 1500 > -17). For reionization models, extrapolating luminosity functions with a constant faint-end slope from M 1500 = -17 down to M 1500 = -12 gives the most reasonable upper limit for the total UV luminosity and cosmic star formation rate up to z ~ 12. We compare to three other empirical models and one semi-analytic model, showing that the range of predicted observables from our approach encompasses predictions from other techniques. Public catalogues and light-cones for common fields are available online.

79 ASTRONOMY AND ASTROPHYSICS↗

Validation of MCNP Critical Benchmark Models of PU-MET-FAST-016 [Slides]

The validation of PU-MET-FAST-016 contributed to the centralized LANL benchmark repository currently under development. The revisions made the MCNP models statistically, significantly more similar to the benchmark models. The overall impact on the USL is negligible. The revisions to the PU-MET-FAST-016 models provide value to the Los Alamos Benchmark Suite without invalidating past Whisper results.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Comparative Assessment of Data-driven Process Models in Health Information Technology

Process mining for conformance analysis consists of comparing a reference process model against a data-driven process model generated via log files from information technology systems. However, in the absence of a complete reference process model, we found no suggested approaches in the literature to address the need for evaluating process conformance among different healthcare facilities to assess standardization of care. Our goal is to find similarities and dissimilarities in data-driven process models among US Veterans Health Administration (VHA) facilities that can be indicative of patient safety issues. Our hypothesis was that the analysis would not produce statistically significant differences in outcome. We present a unique implementation of conformance analysis in process mining that consists of combining process mining, process mapping and statistical metrics. We illustrate our approach by applying it to the analysis of two clinical radiology order process models generated from healthcare data provided by two similar facilities in the VHA. The comparative assessment showed that about 70% of the orders completed successfully and 30% were not completed due to policy and duplications. Our analysis found a good statistical correlation between both facilities, as the Spearman’s correlation coefficient between facilities for the frequency of cases per total hours was 0.87879, for the frequency of cases by state transition was 0.79702 and for the throughput time per state transition was 0.63582. Additional statistical analyses using the Mann-Whitney U test and the root mean square error both produced values that were not significant. The foregoing approach validated our hypothesis by demonstrating a good statistical correlation of data describing the flow of clinical radiology orders absent a credible reference model. Finding good agreement between both facilities was important in confirming that the clinical orders flow in a similar manner, suggesting standardization of care.

97 MATHEMATICS AND COMPUTING↗

Correlations between the Neutron Star Mass–Radius Relation and the Equation of State of Dense Matter

We develop an analytic method of inverting the Tolman–Oppenheimer–Volkoff relations to high accuracy. In principle, a specified energy density–pressure relation gives a unique mass–radius (M–R) relation and vice versa. Our method is developed from the strong correlations that are shown to exist between the neutron star mass–radius curve and the equation of state (EOS) or pressure–energy density relation. Selecting points that have masses equal to fixed fractions of the maximum mass, we find a semi-universal power-law relation between the central energy densities, pressures, sound speeds, chemical potentials, and number densities of those stars, with the maximum mass and the radii of one or more fractional maximum mass points. Rms fitting accuracies, for EOSs without large first-order phase transitions, are typically 0.5% for all quantities at all mass points. The method also works well, although less accurately, in reconstructing the EOS of hybrid stars with first-order phase transitions. These results permit, in effect, an analytic method of inverting an arbitrary M–R curve to yield its underlying EOS. We discuss applications of this inversion technique to the inference of the dense matter EOS from measurements of neutron star masses and radii as a possible alternative to traditional Bayesian approaches.

Bayesian statistics↗

Energetic particle optimization of quasi-axisymmetric stellarator equilibria

Abstract An important goal of stellarator optimization is to achieve good confinement of energetic particles such as, in the case of a reactor, alphas created by deuterium–tritium fusion. In this work, a fixed-boundary stellarator equilibrium was re-optimized for energetic particle confinement via a two-step process: first, by minimizing deviations from quasi-axisymmetry (QA) on a single flux surface near the mid-radius, and secondly by maintaining this improved QA while minimizing the analytical quantity Γ C , which represents the angle between magnetic flux surfaces and contours of J | | , the second adiabatic invariant. This was performed multiple times, resulting in a group of equilibria with significantly reduced energetic particle losses, as evaluated by Monte Carlo simulations of alpha particles in scaled-up versions of the equilibria. This is the first time that energetic particle losses in a QA stellarator have successfully been reduced by optimizing Γ C . The relationship between energetic particle losses and metrics such as QA error ( E q a ) and Γ C in this set of equilibria were examined via statistical methods and a nearly linear relationship between volume-averaged Γ C and prompt particle losses was found.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Navigating the Deployment and Downlink Tradespace for Earth Imaging Constellations

Distributed Spacecraft Missions (DSMs) are gaining momentum in their application to Earth Observation (EO) missions owing to their unique ability to increase observation sampling in spatial, spectral, angular and temporal dimensions simultaneously. DSM design includes a much larger number of variables than its monolithic counterpart, therefore, Model-Based Systems Engineering (MBSE) has been often used for preliminary mission concept designs, to understand the trade-offs and interdependencies among the variables. MBSE models are complex because the various objectives a DSM is expected to achieve are almost always conflicting, non-linear and rarely analytical. NASA Goddard Space Flight Center (GSFC) is developing a pre-Phase A tool called Tradespace Analysis Tool for Constellations (TAT-C) to initiate constellation mission design. The tool will allow users to explore the tradespace between various performance, cost and risk metrics (as a function of their science mission) and select Pareto optimal architectures that meet their requirements. This paper will describe the different types of constellations that TAT-C’s Tradespace Search Iterator is capable of enumerating (homogeneous Walker, heterogeneous Walker, precessing type, ad-hoc) and their impact on key performance metrics such as revisit statistics, time to global access and coverage. We will also discuss the ability to simulate phased deployment of the given constellations, as a function of launch availabilities and/or vehicle capability, and show the impact on performance. All performance metrics are calculated by the Data Reduction and Metric Computation module within TAT-C, which issues specific requests and processes results from the Orbit and Coverage module. Our TSI is also capable of generating tradespaces for downlinking imaging data from the constellation, based on permutations of available ground station networks - known (default) or customized (by the user). We will show the impact of changing ground station options for any given constellation, on data latency and required communication bandwidth, which in turn determines the responsiveness of the space system.

Nag, Sreeja↗

Updates of MERRA-2 Data and Services at NASA GES DISC

Over40 years of NASA climate reanalysis datasets from the Modern-Era Retrospective analysis for Research and Applications, Version 2 (MERRA-2) are available at the NASA Goddard Earth Sciences Data and Information Services Center (GES DISC). In addition to being used in traditional weather and climate research, MERRA-2 is also widely used in application studies of, e.g., wind and solar energy, air quality and health, food and drought, and heat waves. Two new MERRA-2 datasets were recently added at the GES DISC: (1) climate statistics derived fromMERRA-2 daily data to assist in the analysis of extreme temperature and precipitation events and of large-scale meteorological patterns from 1980 to the present and (2) gridded satellite and conventional observations processed in the MERRA-2 system, along with key statistics derived from the data assimilation, to help better understand how the quality of observations directly affect there analysis data. The GES DISC focuses its efforts on continually improving existing data services and to develop new data tools to satisfy various user communities. The newly added features include the following: Time series service: This is a new service for MERRA-2 data, which enables the easy and fast access of long-term hourly or daily time series at a location for popular parameters. The data is saved in a single le in Ascii format with a user- friendly structure. New analytic functions in the subsetter interface: Options for downloading daily minimum and maximum values have been added into the subsetter interface, in addition to the existing daily mean option, for all MERRA-2 and MERRA sub-daily products. Data format conversion to GeoTIFF has been implemented. New variables in Giovanni: Most monthly variables have been integrated into Giovanni, GESDISC’s online visualization and analysis tool. Due to the large data volume, hourly variables were selected based on user requests. More online information: New MERRA-2 documentation has been added: Data How-To, Data in Action, and FAQ. This presentation overviews two new MERRA-2 datasets and illustrates the new features of data services through a number of case studies. MERRA-2 data and services can be found at: https://disc.gsfc.gov/datasets?

Data management↗