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At least 559 records · Page 31

The Quantum Alternating Operator Ansatz on Maximum k -Vertex Cover

The Quantum Alternating Operator Ansatz is a generalization of the Quantum Approximate Optimization Algorithm (QAOA) designed for finding approximate solutions to combinatorial optimization problems with hard constraints. In this paper, we study Maximum k-Vertex Cover under this ansatz due to its modest complexity, while still being more complex than the well studied problems of Max-Cut and Max E3-LIN2. Our approach includes (i) a performance comparison between easy-to-prepare classical states and Dicke states as starting states, (ii) a performance comparison between two XY -Hamiltonian mixing operators: the ring mixer and the complete graph mixer, (iii) an analysis of the distribution of solutions via Monte Carlo sampling, and (iv) the exploration of efficient angle selection strategies.

97 MATHEMATICS AND COMPUTING↗

Exploration of signal processing methods for superconducting magnet and quench data

Quenching is the phenomenon of a superconducting magnetic material carrying current transitioning into a regular conducting material. This may cause severe and irreparable damage to the superconductor due to Joule heating. The Magnet Department at Fermi National Accelerator Laboratory (FNAL) has acquired experimental data through quench antenna arrays that are recorded when the quench is detected. These data are in terms of voltage signals that are sampled at 100kHz for several minutes. There are multiple channels and each channel provides a data set of more than 20 million observations, while there is one channel, called the trigger channel which shows the time when quench is detected. Despite some advancements that were made including machine learning, data complexity still shadows the progress. In this work, we studied a multi-resolution analysis of the quench antenna data through the Haar wavelet transform. In particular, we applied the maximally overlapped discrete w avelet transform (MODWT) of a suitable level L to the given data and then projected it onto the wavelet basis. This decomposes a given signal (Original data) $x ϵ \mathbb{R}^N$ into $L + 1$ subspaces of $\mathbb{R}^N$. One of the subspaces called the approximation, captures the trend of the signal, and the others, called the details, capture the fluctuations at different frequency bands. This decomposition provides a clear trend of the data at a suitable level and also various activities (spikes) are seen in the details of the decomposition at every level. These spikes might reveal some information about the quench under investigation but in any case, give information about magnet behavior. Also, this decomposition is seen to be very useful in removing noise present in the data due to the source or mechanism of the experiment.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Dynamic structure of the full-length scaffolding protein NHERF1 influences signaling complex assembly

The Na+/H+ exchange regulatory cofactor 1 (NHERF1) protein modulates the assembly and intracellular trafficking of several transmembrane G protein–coupled receptors (GPCRs) and ion transport proteins with the membrane–cytoskeleton adapter protein ezrin. We applied in this report solution NMR and small-angle neutron scattering (SANS) to structurally characterize full-length NHERF1 and disease-associated variants that are implicated in impaired phosphate homeostasis. Using NMR, we mapped the modular architecture of NHERF1, which is composed of two structurally-independent PDZ domains that are connected by a flexible, disordered linker. We observed that the ultra-long and disordered C-terminal tail of NHERF1 has a type 1 PDZ-binding motif that interacts weakly with the proximal, second PDZ domain to form a dynamically autoinhibited structure. Using ensemble-optimized analysis of SANS data, we extracted the molecular size distribution of structures from the extensive conformational space sampled by the flexible chain. Our results revealed that NHERF1 is a diffuse ensemble of variable PDZ domain configurations and a disordered C-terminal tail. The joint NMR/SANS data analyses of three disease variants (L110V, R153Q, and E225K) revealed significant differences in the local PDZ domain structures and in the global conformations compared with the WT protein. Furthermore, we show that the substitutions affect the affinity and kinetics of NHERF1 binding to ezrin and to a C-terminal peptide from G protein–coupled receptor kinase 6A (GRK6A). Significant insight into the modulation of the intrinsic flexibility of NHERF1 by disease-associated point mutations that alter the dynamic assembly of signaling complexes are provided in this work.

59 BASIC BIOLOGICAL SCIENCES↗

Sorption Behavior of Iodate Ions on Calcium Silicate Hydrate under a High Saline Condition - 18176

The sorption behavior of iodate ions on calcium-silicate hydrate (CSH) gel under high saline condition was examined by monitoring the concentrations of iodate ions and chloride ions using ion chromatography and Raman spectroscopy, without drying process. In the sorption experiments, a stable isotope I-127 was used as an alternative of I-129 which is radioactive one. Each sample was synthesized with mixing CaO powder, SiO{sub 2} as fumed silica and NaCl solution. Ca/Si molar ratios of CSH gel were set to 0.4, 0.8, 1.2 and 1.6 (add 0.2, 0.6, 1.0 and 1.4 only L/S = 20), and the concentration of NaCl solution was set to 0 M or 0.6 M for simulating the condition of fresh or saline groundwater. The liquid/solid (L/S) ratios of CSH gel were set to 10, 15 and 20, and the total weight of solid phase was 1.5 g. At the same time, NaIO{sub 3} solution was added to the sample in order to adjust its concentration to 1.0 mM, 0.67 mM and 0.5 mM for each L/S ratios. The synthesis procedure for all samples was conducted in a glove bag filled with nitrogen gas. The curing period was 7, 14, 30, and 60 days at a room temperature (298 K) with shaking at 120 strokes/min. As a results, the concentration of iodate ions in the liquid phase decreased for all samples under experimental conditions. Besides, the sorption behavior of iodate ions were hardly changed by the concentration of NaCl. That is, iodate ions migrated to solid phase in spite of the high concentration of NaCl. The distribution coefficients, Kd, increased as Ca/Si ratio increased, and hardly depended on NaCl concentration. The results of Raman analysis shows that the structure of CSH gel was almost not changed with or without NaCl from the viewpoint of the silicate chain under this condition. These results suggest that a sorption process except for the electrostatic process such as an ion exchange and a complexation exists between CSH gel and iodate ions. Besides, CSH gel might be able to contribute the retardation for the migration of iodate ions without changing its structure, even if the disposal environment are saturated by a high saline groundwater. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Effect of Mg doping on carrier recombination in GaN

Time-resolved photoluminescence measurements have been performed on Mg-doped GaN for Mg concentrations in the low- to mid-10 19 cm -3 . As-grown and annealed (600–675 °C) samples were studied. In the as-grown samples, the nonradiative carrier lifetime was found to be about 200 ps and nearly independent of the Mg concentration. Upon annealing, the carrier lifetimes shorten to ~150 ps but, again, show little dependence on the annealing temperature. The analysis of possible Shockley–Read–Hall recombination centers and their behavior during doping and annealing suggests that the main nonradiative recombination center is the Mg–nitrogen vacancy complex. The weak dependence of the PL decay times on temperature indicates that carrier capture into this center has a very low potential barrier, and the nonradiative recombination dominates even at low temperatures.

36 MATERIALS SCIENCE↗

BSSD 2019 Performance Metric Q4

The LANL SFA in Terrestrial Microbial Carbon Cycling aims to inform climate modeling and enable carbon management in terrestrial ecosystems by discovering widespread biological processes that control carbon storage and release in temperate biome soils. To achieve these goals, computational approaches are essential to analyze increasingly complex ‘omics’ data from microbial communities in environmental samples. The SFA continues to leverage advances in ‘omics' measurement technology and computation tools to decipher microbial community function in environmental samples. The computational approach is aligned with the recent shift in the SFA’s research approach. When the SFA began 10 years ago, computational approaches principally addressed “who is there” with extremely limited insight into function. Accessible ‘omics' data for complex soil communities were primarily amplicon DNA sequences of taxonomic or functional marker genes obtained by PCR, cloning, and Sanger sequencing. Computational tools for community analysis were nascent. Over the past decade, genome resources (DOE-Integrated Microbial Genomics database) and data acquisition increased 1000-fold, common computational pipelines for many analysis tasks have arisen, and the variety of ‘omics’ measurements has expanded to routinely include shotgun metagenomics, metatranscriptomics, and versions of metabolomics. The SFA is capitalizing on these advances while also developing new computational techniques to decipher how communities with different patterns of carbon cycling function from the species to ecosystem level.

54 ENVIRONMENTAL SCIENCES↗

Polarized Photocathodes development for the EIC: Optimizing Spin and Quantum Efficiency

GaAs/GaAsP superlattice photocathodes play a critical role for producing highly polarized electron beams for the Electron-Ion Collider (EIC) at Brookhaven National Laboratory. The electron pre-injector for the EIC requires electron bunches with high bunch charge (1-2 nC) and high polarization, from GaAs-based superlattice photocathode. Herein, we have systematically investigated a range of GaAs/GaAsP superlattice photocathodes fabricated via molecular beam epitaxy (MBE) and metal-organic chemical vapor deposition (MOCVD). Through optimization of pre-cleaning procedures and surface doping conditions, we aim to identify the most promising photocathode configurations for future EIC operations. To enhance the quantum efficiency (QE), a Distributed Bragg Reflector structure is frequently incorporated beneath the superlattice. While this approach effectively increases QE, it also introduces additional complexities that can adversely influence spin polarization and the spectral response at specific laser wavelengths. This note provides an overview of superlattice GaAs development and outlines the EIC team’s ongoing efforts to address related challenges and advance high-performance photocathode development tailored for the EIC. Over five years of multi-institutional collaboration and measurements of about 50 SL-GaAs samples, our analysis presents statistics on samples exhibiting high ESP and high QE. It will help to set the initial ESP requirements for the EIC project.

43 PARTICLE ACCELERATORS↗

Statistical and sensitivity analysis of failing rods in EPR LBLOCA

A statistical fuel failure analysis procedure has been developed, and is now applied in full scale to a large break loss-of-coolant accident (LBLOCA) scenario in EPR-type nuclear power plant. The goal is to statistically determine the number of failing fuel rods. It is also important to bring out the underlying causes for rod failures, and therefore a sensitivity analysis procedure for the preceding complex calculation chain is outlined and adopted. In order to produce a statistically reliable estimation on the number of failing rods, a large number of simulations are required. In the analysis, single rods are simulated with the coupled fuel performance - thermal hydraulics code FRAPTRAN-GENFLO. The statistically varied factors are divided into global and local by their range of influence. Transient thermal hydraulic and power history boundary conditions and model parameters are global and affect all the rods. Fuel rod manufacturing parameters and other rod position related factors are local and are related to a certain rod. The number of global scenarios is 59 as dictated by the Wilks' formula, and 1000 randomly sampled rods are simulated in each scenario. The thermal hydraulic and transient power boundary conditions for the fuel performance code are calculated with a statistical version of the system code APROS. The steady-state irradiation histories are simulated with FRAPCON, and the steady-state power histories used as boundary conditions for FRAPCON are obtained from SIMULATE calculations. Thus, a multistage calculation chain is required to consolidate the procedure. As an outcome, in the worst global scenario, 1.4% of the simulated rods failed. It can be concluded that the Finnish safety regulations, i.e. max. 10% of the rods allowed to fail, are met. In order to find out which input parameters have significance to the outcome of the analysis, a sensitivity analysis is done. At the moment, only the worst global scenario is considered but later on it is possible to include also the sensitivities of the global factors. Due to complexity of the existing data, first the relevant input parameters for the sensitivity analysis have to be specified. Data visualization with a cobweb graph is used for the screening. Then, selected sensitivity measures are calculated between the chosen input and output parameters. The sensitivity indices calculated are the Borgonovo's delta measure, the first order Sobol sensitivity index, and squared Pearson correlation coefficients. The first mentioned is a novelty in this context. As an outcome, the most relevant parameters with respect to the cladding integrity were determined to be the decay heat power during the transient, the thermal hydraulic conditions in the rod's location in the reactor, and the steady-state irradiation history of the rod as represented in this analysis by the rod burnup. (authors)

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Nanoparticle-Induced Disorder at Complex Liquid–Liquid Interfaces: Effects of Curvature and Compositional Synergy on Functional Surfaces

The self-assembly of surfactant monolayers at interfaces plays a sweeping role in tasks ranging from household cleaning to the regulation of the respiratory system. The synergy between different nanoscale species at an interface can yield assemblies with exceptional properties, which enhance or modulate their function. However, understanding the mechanisms underlying coassembly, as well as the effects of intermolecular interactions at an interface, remains an emerging and challenging field of study. Herein, we study the interactions of gold nanoparticles striped with hydrophobic and hydrophilic ligands with phospholipids at a liquid–liquid interface and the resulting surface-bound complexes. We show that these nanoparticles, which are themselves minimally surface active, have a direct concentration-dependent effect on the rapid reduction of tension for assembling phospholipids at the interface, implying molecular coassembly. Through the use of sum frequency generation vibrational spectroscopy, we reveal that nanoparticles impart structural disorder to the lipid molecular layers, which is related to the increased volumes that amphiphiles can sample at the curved surface of a particle. The results strongly suggest that hydrophobic and electrostatic attractions imparted by nanoparticle functionalization drive lipid–nanoparticle complex assembly at the interface, which synergistically aids lipid adsorption even when lipids and nanoparticles approach the interface from opposite phases. The use of tensiometric and spectroscopic analyses reveals a physical picture of the system at the nanoscale, allowing for a quantitative analysis of the intermolecular behavior that can be extended to other systems.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Cosmological Evidence Modelling: a new simulation-based approach to constrain cosmology on non-linear scales

Extracting accurate cosmological information from galaxy–galaxy and galaxy–matter correlation functions on non-linear scales (${\lesssim } 10 \, h^{-1}{\rm {Mpc}}$) requires cosmological simulations. Additionally, one has to marginalize over several nuisance parameters of the galaxy–halo connection. However, the computational cost of such simulations prohibits naive implementations of stochastic posterior sampling methods like Markov chain Monte Carlo (MCMC) that would require of order $\mathcal {O}(10^6)$ samples in cosmological parameter space. Several groups have proposed surrogate models as a solution: a so-called emulator is trained to reproduce observables for a limited number of realizations in parameter space. Afterwards, this emulator is used as a surrogate model in an MCMC analysis. In this work, we demonstrate a different method called Cosmological Evidence Modelling (CEM). First, for each simulation, we calculate the Bayesian evidence marginalized over the galaxy–halo connection by repeatedly populating the simulation with galaxies. We show that this Bayesian evidence is directly related to the posterior probability of cosmological parameters. Finally, we build a physically motivated model for how the evidence depends on cosmological parameters as sampled by the simulations. We demonstrate the feasibility of CEM by using simulations from the Aemulus simulation suite and forecasting cosmological constraints from BOSS CMASS measurements of redshift-space distortions. Our analysis includes exploration of how galaxy assembly bias affects cosmological inference. Overall, CEM has several potential advantages over the more common approach of emulating summary statistics, including the ability to easily marginalize over highly complex models of the galaxy–halo connection and greater accuracy, thereby reducing the number of simulations required.

79 ASTRONOMY AND ASTROPHYSICS↗

Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements

The Genomes Online Database (GOLD) (https://gold.jgi.doe.gov) is a manually curated data management system that catalogs sequencing projects with associated metadata from around the world. In the current version of GOLD (v.6), all projects are organized based on a four level classification system in the form of a Study, Organism (for isolates) or Biosample (for environmental samples), Sequencing Project and Analysis Project. Currently, GOLD provides information for 26 117 Studies, 239 100 Organisms, 15 887 Biosamples, 97 212 Sequencing Projects and 78 579 Analysis Projects. These are integrated with over 312 metadata fields from which 58 are controlled vocabularies with 2067 terms. The web interface facilitates submission of a diverse range of Sequencing Projects (such as isolate genome, singlecell genome, metagenome, metatranscriptome) and complex Analysis Projects (such as genome from metagenome, or combined assembly from multiple Sequencing Projects). GOLD provides a seamless interface with the Integrated Microbial Genomes (IMG) system and supports and promotes the Genomic Standards Consortium (GSC) Minimum Information standards. Here, this paper describes the data updates and additional features added during the last two years.

97 MATHEMATICS AND COMPUTING↗

Complex magnetic properties of TbMn{sub 1-x}Fe{sub x}O{sub 3} (x = 0.1 and 0.2) nanoparticles prepared by the sol-gel method

TbMn{sub 1-x}Fe{sub x}O{sub 3} nanoparticles (NPs) with x = 0, 0.1 and 0.2 have been prepared by adopting the chemical sol-gel method. Phase identification and particle size estimation are done by XRD analysis. M-H measurements at 5 K indicate a complete ferromagnetic behaviour in the Fe-doped samples with large coercivity whereas the pristine sample shows presence of both ferromagnetic and antiferromagnetic orders. ZFC and FC magnetization curves of all samples show signature of antiferromagnetic ordering of both terbium and manganese magnetic moments along with a systematic shift of ordering temperatures with Fe substitution. {sup 57}Fe Mössbauer spectroscopic measurements of the Fe-doped samples at room temperature confirm the paramagnetic behaviour and reduction of electric field gradient around Fe probe atoms with increase of Fe concentration.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

DNA2FACE: An approach to correlating 3D facial structure and DNA

In this paper we introduce the concept of correlating genetic variations in an individual's specific genetic code (DNA) and facial morphology. This is the first step in the research effort to estimate facial appearance from DNA samples, which is gaining momentum within intelligence, law enforcement and national security communities. The dataset for the study consisting of genetic data and 3D facial scans (phenotype) data was obtained through the FaceBase Consortium. The proposed approach has three main steps: phenotype feature extraction from 3D face images, genotype feature extraction from a DNA sample, and genome-wide association analysis to determine genetic variations that contribute to facial structure and appearance. Results indicate that there exist significant correlations between genetic information and facial structure. We have identified 30 single nucleotide polymorphisms (SNPs), i.e. genetic variations, that significantly contribute to facial structure and appearance. We conclude with a preliminary attempt at facial reconstruction from the genetic data and emphasize on the complexity of the problem and the challenges encountered.

Srinivas, Nisha↗

Comparison of Multi-Scale Nonlinear and Conventional Linear Methods for Stress Analysis of Nb 3 Sn Superconducting Magnets

Here this is an extension of the work on a multi-scale nonlinear procedure that demonstrated how to conduct nonlinear stress analysis of Nb 3 Sn superconducting accelerator magnets. The nonlinear procedure uses measured stress-strain curves of annealed copper, Nb 3 Sn strands and coil samples as inputs, which reduces the number of assumptions made for material properties—key uncertainties of any engineering analysis. The results from nonlinear analysis, semi-nonlinear analysis, and linear analysis of the same QFFB2 Nb 3 Sn quadrupole magnet under the same temperature and loads, were compared and discussed. The comparison illustrates that nonlinear stress analysis is significantly more accurate than other methods. As the superconducting coil block is a complex, composite material, it would be inadequate to assume the whole coil block to be linear, either isotropic or orthotropic. It is imperative to conduct nonlinear analysis by simulating the superconducting coil to the level of detail of the individual cables and individual strands. The nonlinear stress analysis procedure can be used to simulate not only Nb 3 Sn magnets, but also NbTi and HTS magnets.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Molecular mechanics of Staphylococcus aureus adhesin, CNA, and the inhibition of bacterial adhesion by stretching collagen

Bacterial adhesion to collagen, the most abundant protein in humans, is a critical step in the initiation and persistence of numerous bacterial infections. In this study, we explore the collagen binding mechanism of the multi-modular cell wall anchored collagen adhesin (CNA) in Staphylococcus aureus and examine how applied mechanical forces can modulate adhesion ability. The common structural-functional elements and domain organization of CNA are present across over 50 genera of bacteria. Through the use of molecular dynamics models and normal mode analysis, we shed light on the CNA’s structural and conformational dynamics and its interactions with collagen that lead to collagen binding. Our results suggest that the linker region, CNA 165-173 , acts as a hinge exhibiting bending, extensional, and torsional modes of structural flexibility and its residues are key in the interaction of the CNA-collagen complex. Steered molecular dynamics simulations were conducted with umbrella sampling. During the course of these simulations, the ‘locking’ latch from the CNA N2 domain was dissociated from its groove in the CNA N1 domain, implying the importance of the latch for effective ligand binding. Finally, we observed that the binding efficiency of the CNA N1-N2 domains to collagen decreases greatly with increasing tensile force application to the collagen peptides. Thus, CNA and similar adhesins might preferentially bind to sites in which collagen fibers are cleaved, such as in wounded, injured, or inflamed tissues, or in which the collagenous tissue is less mature. As alternative techniques for control of bacterial infection are in-demand due to the rise of bacterial antibiotic resistance, results from our computational studies with respect to the mechanoregulation of the collagen binding site may inspire new therapeutics and engineering solutions by mechanically preventing colonization and/or further pathogenesis.

Science & Technology - Other Topics↗

Compositional analysis of organosolv poplar lignin by using high-performance liquid chromatography/high-resolution multi-stage tandem mass spectrometry

Organosolv treatment is an efficient and environmentally friendly process to degrade lignin into small compounds. The capability of characterizing the individual compounds in the complex mixtures formed upon organosolv treatment is essential for the optimization of the further lignin conversion processes and for the rational genetic engineering of plants used to produce lignin in order to improve lignin properties. In this study, an organosolv poplar lignin sample was initially analyzed by high-resolution mass spectrometry coupled with negative-ion mode electrospray ionization ((-)ESI HRMS). Lignin monomers and dimers were found to constitute the majority of the compounds in the organosolv lignin sample. Larger lignin oligomers, such as trimers and tetramers, and some not lignin-related compounds, were also detected. A high-performance liquid chromatograph/linear quadrupole ion trap/orbitrap mass spectrometer capable of multi-stage high-resolution tandem mass spectrometry experiments (HRMS n ), equipped with an (-)ESI source (HPLC/(-)ESI HRMS n ), was employed to separate the unknown compounds in the organosolv mixture and to obtain structural information for the deprotonated compounds via collision-activated dissociation (CAD) HRMS n experiments. To improve the understanding of the CAD behavior of deprotonated lignin-related compounds, 16 deprotonated model compounds with different functionalities and linkage types were examined. This approach enabled the assignment of likely structures for several lignin monomers, dimers, trimers, and tetramers, and some not lignin-related compounds, most likely fatty acids. Based on the proposed structures, compounds in the organosolv lignin sample contain β-O-4, 5–5, β-5, and possibly also 4-O-5 linkages. Most compounds contain G- and S-monomeric units although a small amount of H-units were also detected.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Surface analysis insight note: X‐ray photoelectron spectroscopy analysis of battery electrodes—Challenges with nickel–manganese–cobalt and Li examples using an Al Kα x‐ray source

X‐ray photoelectron spectroscopy (XPS) has become a highly important tool for the analysis of battery materials and components. However, both anecdotal and detailed analysis of selected parts of the literature indicate that many reports of XPS on battery electrodes have significant analysis or data flaws. In this paper, we highlight several of the common challenges that analysts face when using XPS for battery materials, pointing to recent literature that addresses many of the critical issues associated with sample preparation as well as data collection and analysis. A common error for battery materials (and other materials) involves ignoring peak overlaps and interferences. Specifically, when a “minor” peak associated with a component in relatively high concentration overlaps or contributes to the primary peak (or one recommended for quantitative analysis) from a different element in the material. Overlap issues apply to many battery electrodes composed of many elements with complex photoelectron peak structures, as well as those involving peaks with seemingly simpler spectral envelopes such as Li and F. Examples of issues associated with battery systems are highlighted by a discussion of challenges associated with XPS analysis of Li and nickel–manganese–cobalt (NMC) electrodes in battery systems. Lithium analysis has challenges associated with the preparation and an often‐unrecognized peak overlap with F. In our laboratory and in the literature, NMC electrodes are often examined and new XPS users do not always recognize interference of the Auger signal from F KLL (in or on the electrode) with Ni 2p photoelectron spectrum when generated with Al Kα X‐rays. The use of simulated spectra involving both F and NiO demonstrates the extent of F Auger contributions to the Ni 2p signal strength as a function of the F/Ni atom ratio in the material and suggests spectra information that can be used to identify how significant effects will be on the resultant spectra. Our analysis demonstrates that in many cases overlap issues are significant for real electrode materials.

25 ENERGY STORAGE↗