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At least 307 records · Page 17

An on-demand, drop-on-drop method for studying enzyme catalysis by serial crystallography

Serial femtosecond crystallography has opened up many new opportunities in structural biology. In recent years, several approaches employing light-inducible systems have emerged to enable time-resolved experiments that reveal protein dynamics at high atomic and temporal resolutions. However, very few enzymes are light-dependent, whereas macromolecules requiring ligand diffusion into an active site are ubiquitous. In this work we present a drop-on-drop sample delivery system that enables the study of enzyme-catalyzed reactions in microcrystal slurries. The system delivers ligand solutions in bursts of multiple picoliter-sized drops on top of a larger crystal-containing drop inducing turbulent mixing and transports the mixture to the X-ray interaction region with temporal resolution. We demonstrate mixing using fluorescent dyes, numerical simulations and time-resolved serial femtosecond crystallography, which show rapid ligand diffusion through microdroplets. The drop-on-drop method has the potential to be widely applicable to serial crystallography studies, particularly of enzyme reactions with small molecule substrates.

59 BASIC BIOLOGICAL SCIENCES↗

Neoclassical transport and profile prediction in transport barriers

Strong gradient regions in tokamaks, such as the pedestal or internal transport barriers, are regions of reduced turbulence where neoclassical transport can play a dominant role. However, standard neoclassical transport theory assumes that the gradient length scales of density, temperature, and potential are of the order of the system size. In the pedestal, gradient length scales are much shorter and are measured to be of the order of the ion poloidal gyroradius. We present an extension of neoclassical theory that is applicable in transport barriers of large aspect ratio tokamaks. We show that particle and momentum transport are connected in such a way that a source of parallel momentum can drive a significant neoclassical ion particle flux. In strong gradient regions, density, electric potential, mean parallel flow, and ion temperature are shown to no longer be flux functions. Instead, they have a small but important poloidally varying piece that modifies the transport equations to lowest order. This introduces a nonlinearity in the transport problem through the coupling with quasineutrality that yields multiple co-existing solutions when solving for the plasma profiles. The different solutions could be connected to low and high transport states and jumps between solutions could provide a new neoclassical explanation for H-L back-transitions.

Trinczek, Silvia [Princeton Plasma Physics Laborat↗

Quantifying and Visualizing Uncertainty for Source Localisation in Electrocardiographic Imaging

Electrocardiographic imaging (ECGI) presents a clinical opportunity to noninvasively understand the sources of arrhythmias for individual patients. To help increase the effectiveness of ECGI, we provide new ways to visualise associated measurement and modelling errors. Here, we study source localisation uncertainty in two steps: First, we perform Monte Carlo simulations of a simple inverse ECGI source localisation model with error sampling to understand the variations in ECGI solutions. Second, we present multiple visualisation techniques, including confidence maps, level-sets, and topology-based visualisations, to better understand uncertainty in source localization. Our approach offers a new way to study uncertainty in the ECGI pipeline.

47 OTHER INSTRUMENTATION↗

An open-source framework for balancing computational speed and fidelity in production cost models

Studies of bulk power system operations need to incorporate uncertainty and sensitivity analyses, especially around exposure to weather and climate variability and extremes, but this remains a computational modeling challenge. Commercial production cost models (PCMs) have shorter runtimes, but also important limitations (opacity, license restrictions) that do not fully support stochastic simulation. Open-source PCMs represent a potential solution. They allow for multiple, simultaneous runs in high-performance computing environments and offer flexibility in model parameterization. Yet, developers must balance computational speed (i.e. runtime) with model fidelity (i.e. accuracy). In this paper, we present Grid Operations (GO), a framework for instantiating open-source, scale-adaptive PCMs. GO allows users to search across parameter spaces to identify model versions that appropriately balance computational speed and fidelity based on experimental needs and resource limits. Results provide generalizable insights on how to navigate the fidelity and computational speed tradeoff through parameter selection. We show that models with coarser network topologies can accurately mimic market operations, sometimes better than higher-resolution models. It is thus possible to conduct large simulation experiments that characterize operational risks related to climate and weather extremes while maintaining sufficient model accuracy.

42 ENGINEERING↗

Sensitivity Enhancement and Random Telegraph Noise in Magnetic Tunnel Junctions with Compensated Anisotropy

We demonstrate the manipulation of perpendicular magnetic anisotropy (PMA) in magnetic tunnel junctions (MTJs) by varying the layer stacks and temperature. PMA is tuned to compensate the shape anisotropy, giving a nonhysteretic magnetic response, a noteworthy sensitivity enhancement, and a field detectability of 1.8 nT/$\sqrt{Hz}$ at 100 kHz. Such a method is further exemplified in multiple MTJs, providing a solution to obtain desired sensitivities and operating temperatures. Additionally, the electronic noise of this MTJ is revealed as a random telegraph noise (RTN) due to a generation-recombination process. In conclusion, the observed voltage-dependent RTN could potentially be applied to true random number generators.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Manufacturability-based optical design optimization for advanced Kirkpatrick–Baez X-ray focusing mirrors

The advanced Kirkpatrick–Baez (AKB) mirror setup is an effective and compelling solution to provide stable X-ray nano-focusing for synchrotron radiation or free-electron laser beamlines. We propose an AKB mirror design optimization approach to mitigate the difficulties associated with mirror fabrication by minimizing the total slope ranges of the four curved mirrors while achieving the expected focusing performance. In the optimization, we have considered geometry constraints to ensure the beam acceptance with the required clear aperture, the diffraction-limited focal size with the adequate numerical aperture, and the desired mirror gaps for adjustment and the necessary working distance for the sample stage. Additionally, practical constraints linked to mirror metrology and fabrication, such as mirror length limits and curvature uncertainty in measurement, are taken into account. Furthermore, progressive objective optimization eliminates the need for any initial guess, fully automating the AKB optimization process. This approach facilitates the development of an elegant Wolter-I or Wolter-III type AKB design solution that satisfies these multiple constraints. In cases where constraints cannot be simultaneously satisfied, the optimization results provide valuable insights into areas where trade-offs need to be considered. Simulations with ray tracing and wavefront propagation validate the optimized AKB design showing high tolerance to the beam incident angle.

36 MATERIALS SCIENCE↗

Enabling generalized phage therapy to treat secondary infections in COVID-19 (CRADA Final Report)

COVID-19 is a global health threat, with 32 millions infected and more than 500,000 deaths in the U.S. alone. A key aspect of COVID-19 deaths is bacterial secondary infections, with Staphylococcus aureus, Acinetobacter baumannii, and Pseudomonas aeruginosa identified as some of the major causative pathogens. Phage therapy, i.e., the administration of bacteriophages (viruses infecting these bacterial pathogens) to patients offers a complementary solution to antibiotics with multiple key advantages. Felix Biotechnology’s is developing a high-throughput platform to identify phages that not only kill pathogens, but also drive targeted trade-off of pathogenic phenotypes such as reduced virulence and antibiotic resistance, at a fraction of the time and R&D cost of any competitor. In this project, collaboration with scientists from the Lawrence Berkeley National Laboratory enabled Felix Biotechnology to establish robust analysis pipeline to investigate phage-host interactions in complex samples. These should enable a quick and robust identification of promising phages and key genetic determinants for therapy applications, paving the way towards a streamlined and safe use of phages in the clinic.

59 BASIC BIOLOGICAL SCIENCES↗

An Assessment of Receiver Algorithms for Distributed Massive MIMO Systems: Investigating Design Solutions and Performance

This study investigates receiver design solutions for distributed Massive Multiple Input Multiple Output (D-m MIMO) systems, taking into account parameters such as number of access points as well as concerns related to channel estimates that use single-carrier frequency-domain equalization (SC-FDE). A significant contribution of this research is the integration of Low-Density Parity-Check (LDPC) codes to simplify coding complexity and enhance communication efficiency. The research examines different receiver designs, such as spatial antenna correlation and sophisticated channel estimation methods. The authors propose integrating LDPC codes into the receiver architecture to simplify computations and enhance error correction and decoding. Moreover, the paper examines performance evaluation measures and approaches, highlighting the trade-offs among complexity, spectral efficiency, and error performance. The comparative analysis indicates the benefits, in terms of performance, of incorporating LDPC codes and improving system throughput and dependability. We examine four distinct receiver algorithms: zero-forcing (ZF), minimum mean square error (MMSE), maximum ratio combining (MRC), and equal gain combining (EGC). The study shows that MRC and EGC receivers work well in D-m MIMO because they make the receiver system less computationally demanding.

Gashtasbi, Ali↗

Efficient reanalysis of structures by a direct modification method

A procedure for the local stiffness modifications of large structures is described. It enables structural modifications without an a priori definition of the changes in the original structure and without loss of efficiency due to multiple loading conditions. The solution procedure, implemented in NASTRAN, involved the decomposed stiffness matrix and the displacement vectors of the original structure. It solves the modified structure exactly, irrespective of the magnitude of the stiffness changes. In order to investigate the efficiency of the present procedure and to test its applicability within a design environment, several real and large structures were solved. The results of the efficiency studies indicate that the break-even point of the procedure varies between 8% and 60% stiffness modifications, depending upon the structure's characteristics and the options employed.

Raibstein, A. I.↗

On the Angular Variation of Solar Reflectance of Snow

Spectral and integrated solar reflectance of nonhomogeneous snowpacks were derived assuming surface reflection of direct radiation and subsurface multiple scattering. For surface reflection, a bidirectional reflectance distribution function derived for an isotropic Gaussian faceted surface was considered and for subsurface multiple scattering, an approximate solution of the radiative transfer equation was studied. Solar radiation incident on the snowpack was decomposed into direct and atmospherically scattered radiation. Spectral attenuation coefficients of ozone, carbon dioxide, water vapor, aerosol and molecular scattering were included in the calculation of incident solar radiation. Illustrative numerical results were given for a case of North American winter atmospheric conditions. The calculated dependence of spectrally integrated directional reflectance (or albedo) on solar elevation was in qualitative agreement with available observations.

Chang, A. T. C.↗

On the angular variation of solar reflectance of snow

Spectral and integrated solar reflectance of nonhomogeneous snowpacks are derived assuming surface reflection of direct radiation and subsurface multiple scattering. For surface reflection, a bidirectional reflectance distribution function derived for an isotropic Gaussian faceted surface is considered, and for subsurface multiple scattering an approximate solution of the radiative transfer equation is studied. Solar radiation incident on the snowpack is decomposed into direct and atmospherically scattered radiation. Spectral attenuation coefficients of ozone, carbon dioxide, water vapor, aerosol, and molecular scattering are included in the calculation of incident solar radiation. Illustrative numerical results are given for a case of North American winter atmospheric condition. The calculated dependence of spectrally integrated directional reflectance (or albedo) on solar elevation is in qualitative agreement with available observations.

Choudhury, B. J.↗

Optimal reentry guidance for aeroassisted orbit transfer vehicles

A three-state model is presented for analyzing the problem of optimal changes in heading with minimum energy loss for a hypersonic gliding vehicle. A further model order reduction to a single state model is examined using singular perturbation theory. The optimal solution for the reduced problem defines an optimal altitude profile dependent on the current energy of the vehicle. A separate boundary-layer analysis is used to account for altitude and flight path angle dynamics, and to obtain lift and bank angle control solutions. By considering alternative approximations to solve the boundary-layer problem, three guidance laws are obtained, each having a feedback form. The guidance laws are evaluated for a hypothetical vehicle, and compared to an optimal solution obtained using a multiple shooting algorithm.

Calise, Anthony J.↗

Algebraic turbulence modeling for unstructured and adaptive meshes

An algebraic turbulence model based on the Baldwin-Lomax model, has been implemented for use on unstructured grids. The implementation is based on the use of local background structured turbulence meshes. At each time-step, flow variables are interpolated from the unstructured mesh onto the background structured meshes, the turbulence model is executed on these meshes, and the resulting eddy viscosity values are interpolated back to the unstructured mesh. Modifications to the algebraic model were required to enable the treatment of more complicated flows, such as confluent boundary layers and wakes. The model is used in conjuction with an efficient unstructured multigrid finite-element Navier-Stokes solver in order to compute compressible turbulent flows on fully unstructured meshes. Solutions about single and multiple element airfoils are obtained and compared with experimental data.

Mavriplis, Dimitri J.↗

A test suite for magnetohydrodynamical simulations

A collection is presented of MHD problems that will provide researchers who have interests in modeling MHD phenomena with a battery of tests (a 'test suite') for calibrating their numerical algorithms. Use of these tests will provide a common reference for comparison of different numerical MHD algorithms. The test suite includes both 1D and 2D problems. Taken together, these problems test the abilities of a numerical method to propagate accurately all of the MHD wave families in moving and stationary media, to capture MHD shocks and contact discontinuities, and to model accurately Lorentz force terms in multiple dimensions. An example solution of each test problem is presented. Diagnostic convergence-testing procedures that provide a quantitative evaluation of MHD algorithms are demonstrated.

Stone, James M.↗

A hybrid approach to near-optimal launch vehicle guidance

This paper evaluates a proposed hybrid analytical/numerical approach to launch-vehicle guidance for ascent to orbit injection. The feedback-guidance approach is based on a piecewise nearly analytic zero-order solution evaluated using a collocation method. The zero-order solution is then improved through a regular perturbation analysis, wherein the neglected dynamics are corrected in the first-order term. For real-time implementation, the guidance approach requires solving a set of small dimension nonlinear algebraic equations and performing quadrature. Assessment of performance and reliability are carried out through closed-loop simulation for a vertically launched 2-stage heavy-lift capacity vehicle to a low earth orbit. The solutions are compared with optimal solutions generated from a multiple shooting code. In the example the guidance approach delivers over 99.9 percent of optimal performance and terminal constraint accuracy.

Leung, Martin S. K.↗

Artificial intelligence and design: Opportunities, research problems and directions

The issues of industrial productivity and economic competitiveness are of major significance in the U.S. at present. By advancing the science of design, and by creating a broad computer-based methodology for automating the design of artifacts and of industrial processes, we can attain dramatic improvements in productivity. It is our thesis that developments in computer science, especially in Artificial Intelligence (AI) and in related areas of advanced computing, provide us with a unique opportunity to push beyond the present level of computer aided automation technology and to attain substantial advances in the understanding and mechanization of design processes. To attain these goals, we need to build on top of the present state of AI, and to accelerate research and development in areas that are especially relevant to design problems of realistic complexity. We propose an approach to the special challenges in this area, which combines 'core work' in AI with the development of systems for handling significant design tasks. We discuss the general nature of design problems, the scientific issues involved in studying them with the help of AI approaches, and the methodological/technical issues that one must face in developing AI systems for handling advanced design tasks. Looking at basic work in AI from the perspective of design automation, we identify a number of research problems that need special attention. These include finding solution methods for handling multiple interacting goals, formation problems, problem decompositions, and redesign problems; choosing representations for design problems with emphasis on the concept of a design record; and developing approaches for the acquisition and structuring of domain knowledge with emphasis on finding useful approximations to domain theories. Progress in handling these research problems will have major impact both on our understanding of design processes and their automation, and also on several fundamental questions that are of intrinsic concern to AI. We present examples of current AI work on specific design tasks, and discuss new directions of research, both as extensions of current work and in the context of new design tasks where domain knowledge is either intractable or incomplete. The domains discussed include Digital Circuit Design, Mechanical Design of Rotational Transmissions, Design of Computer Architectures, Marine Design, Aircraft Design, and Design of Chemical Processes and Materials. Work in these domains is significant on technical grounds, and it is also important for economic and policy reasons.

Amarel, Saul↗

The provision of spectrum for feeder links of non-geostationary mobile satellites

The possibility of sharing spectrum in the 30/20 GHz band between geostationary fixed-satellite systems and feeder-links of low-earth orbit (LEO) mobile-satellite systems is addressed, taking into account that International Telecommunications Union (ITU) Radio Regulation 2613 would be a factor in such sharing. Interference into each network in both the uplink at 30 GHz and the downlink at 20 GHz is considered. It is determined that if sharing were to take place the mobile-satellite may have to cease transmission often for intervals up to 10 seconds, may have to use high-gain tracking antennas on its spacecraft, and may find it an advantage to use code-division multiple access. An alternate solution suggested is to designate a band 50 to 100 MHz wide at 28 and 18 GHz to be used primarily for feeder links to LEO systems.

Bowen, Robert R.↗

Turbofan Acoustic Propagation and Radiation

This document describes progress in the development of finite element codes for the prediction of near and far field acoustic radiation from the inlet and aft fan ducts of turbofan engines. The report consists of nine papers which have appeared in archival journals and conference proceedings, or are presently in review for publication. Topics included are: 1. Aft Fan Duct Acoustic Radiation; 2. Mapped Infinite Wave Envelope Elements for Acoustic Radiation in a Uniformly Moving Medium; 3. A Reflection Free Boundary Condition for Propagation in Uniform Flow Using Mapped Infinite Wave Envelope Elements; 4. A Numerical Comparison Between Multiple-Scales and FEM Solution for Sound Propagation in Lined Flow Ducts; 5. Acoustic Propagation at High Frequencies in Ducts; 6. The Boundary Condition at an Impedance Wall in a Nonuniform Duct with Potential Flow; 7. A Reverse Flow Theorem and Acoustic Reciprocity in Compressible Potential Flows; 8. Reciprocity and Acoustics Power in One Dimensional Compressible Potential Flows; and 9. Numerical Experiments on Acoustic Reciprocity in Compressible Potential Flows.

Eversman, Walter↗