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At least 559 records · Page 31

Calculation of AGARD Wing 445.6 Flutter Using Navier-Stokes Aerodynamics

The flutter characteristics of the first AGARD standard aeroelastic configuration for dynamic response, Wing 445.6, are studied using an unsteady Navier-Stokes algorithm in order to investigate a previously noted discrepancy between Euler flutter characteristics and the experimental data. The algorithm, which is a three-dimensional, implicit, upwind Euler/Navier-Stokes code (CFL3D Version 2.1), was previously modified for the time-marching, aeroelastic analysis of wings using the unsteady Euler equations. These modifications include the incorporation of a deforming mesh algorithm and the addition of the structural equations of motion for their simultaneous time integration with the governing flow equations. In this paper, the aeroelastic method is extended and evaluated for applications that use the Navier- Stokes aerodynamics. The paper presents a brief description of the aeroelastic method and presents unsteady calculations which verify this method for Navier-Stokes calculations. A linear stability analysis and a time-marching aeroelastic analysis are used to determine the flutter characteristics of the isolated 45 deg. swept-back wing. Effects of fluid viscosity, structural damping, and number of modes in the structural model are investigated. For the linear stability analysis, the unsteady generalized aerodynamic forces of the wing are computed for a range of reduced frequencies using the pulse transfer-function approach. The flutter characteristics of the wing are determined using these unsteady generalized aerodynamic forces in a traditional V-g analysis. This stability analysis is used to determine the flutter characteristics of the wing at free-stream Mach numbers of 0.96 and 1.141 using the generalized aerodynamic forces generated by solving the Euler equations and the Navier-Stokes equations. Time-marching aeroelastic calculations are performed at a free-stream Mach number of 1.141 using the Euler and Navier-Stokes equations to compare with the linear V-g flutter analysis method. The V-g analysis, which is used in conjunction with the time-marching analysis, indicates that the fluid viscosity has a significant effect on the supersonic flutter boundary for this wing while the structural damping and number of modes in the structural model have a lesser effect.

Lee-Rausch, Elizabeth M.↗

Accelerating crystal structure determination with iterative AlphaFold prediction

Experimental structure determination can be accelerated with artificial intelligence (AI)-based structure-prediction methods such as AlphaFold . Here, an automatic procedure requiring only sequence information and crystallographic data is presented that uses AlphaFold predictions to produce an electron-density map and a structural model. Iterating through cycles of structure prediction is a key element of this procedure: a predicted model rebuilt in one cycle is used as a template for prediction in the next cycle. This procedure was applied to X-ray data for 215 structures released by the Protein Data Bank in a recent six-month period. In 87% of cases our procedure yielded a model with at least 50% of C α atoms matching those in the deposited models within 2 Å. Predictions from the iterative template-guided prediction procedure were more accurate than those obtained without templates. It is concluded that AlphaFold predictions obtained based on sequence information alone are usually accurate enough to solve the crystallographic phase problem with molecular replacement, and a general strategy for macromolecular structure determination that includes AI-based prediction both as a starting point and as a method of model optimization is suggested.

59 BASIC BIOLOGICAL SCIENCES↗

Fast-Running Aeroelastic Code Based on Unsteady Linearized Aerodynamic Solver Developed

The NASA Glenn Research Center has been developing aeroelastic analyses for turbomachines for use by NASA and industry. An aeroelastic analysis consists of a structural dynamic model, an unsteady aerodynamic model, and a procedure to couple the two models. The structural models are well developed. Hence, most of the development for the aeroelastic analysis of turbomachines has involved adapting and using unsteady aerodynamic models. Two methods are used in developing unsteady aerodynamic analysis procedures for the flutter and forced response of turbomachines: (1) the time domain method and (2) the frequency domain method. Codes based on time domain methods require considerable computational time and, hence, cannot be used during the design process. Frequency domain methods eliminate the time dependence by assuming harmonic motion and, hence, require less computational time. Early frequency domain analyses methods neglected the important physics of steady loading on the analyses for simplicity. A fast-running unsteady aerodynamic code, LINFLUX, which includes steady loading and is based on the frequency domain method, has been modified for flutter and response calculations. LINFLUX, solves unsteady linearized Euler equations for calculating the unsteady aerodynamic forces on the blades, starting from a steady nonlinear aerodynamic solution. First, we obtained a steady aerodynamic solution for a given flow condition using the nonlinear unsteady aerodynamic code TURBO. A blade vibration analysis was done to determine the frequencies and mode shapes of the vibrating blades, and an interface code was used to convert the steady aerodynamic solution to a form required by LINFLUX. A preprocessor was used to interpolate the mode shapes from the structural dynamic mesh onto the computational dynamics mesh. Then, we used LINFLUX to calculate the unsteady aerodynamic forces for a given mode, frequency, and phase angle. A postprocessor read these unsteady pressures and calculated the generalized aerodynamic forces, eigenvalues, and response amplitudes. The eigenvalues determine the flutter frequency and damping. As a test case, the flutter of a helical fan was calculated with LINFLUX and compared with calculations from TURBO-AE, a nonlinear time domain code, and from ASTROP2, a code based on linear unsteady aerodynamics.

Reddy, T. S. R.↗

Finite-element-analysis model and preliminary ground testing of controls-structures interaction evolutionary model reflector

Results of two different nonlinear finite element analyses and preliminary test results for the final design of the Controls-Structures Interaction Evolutionary Model are presented. Load-deflection data bases are generalized from analysis and testing of the 16-foot diameter, dish shaped reflector. Natural frequencies and mode shapes are obtained from vibrational analysis. Experimental and analytical results show similar trends; however, future test hardware modifications and finite element model refinement would be necessary to obtain better correlation. The two nonlinear analysis procedures are both adequate techniques for the analysis of prestressed structures with complex geometries.

Reaves, Mercedes C.↗

Comparison of structurally diverse simulation models for prediction of epidemic outcomes caused by a long-distance dispersed pathogen

Long-distance dispersal (LDD) pathogens pose substantial challenges for epidemic control due to their ability to generate new infection foci at great distances. While various modeling approaches have been developed to understand and manage such outbreaks, little work has compared how models of different structures behave under shared conditions. Here, in this study, we compare four structurally distinct epidemiological models — EPIMUL, GEMF, PoPS, and Warwick — each adapted to simulate the spread of wheat stripe rust (WSR), a wind-dispersed LDD pathogen, under identical epidemiological parameters and dispersal kernel. Using data from a controlled field experiment, we evaluate the ability of each model to replicate disease prevalence under nine intervention scenarios that vary in timing and culling area. While the models differ substantially in design — ranging from spatial grid-based to network-based and raster-based frameworks — the shared dispersal kernel allowed for close alignment in their predictions. All models accurately captured general epidemic trends, particularly the strong effect of early intervention on disease suppression. We qualitatively compared their behavioral responses across scenarios and also evaluated an ensemble prediction by averaging across model outputs. Our findings highlight how integrating shared epidemiological components into distinct modeling frameworks can improve consistency and accuracy, while reinforcing the importance of early culling in managing LDD pathogen outbreaks.

Dispersal kernel↗

The Climate Response to Emissions Reductions Due to COVID-19: Initial Results From CovidMIP

Many nations responded to the COVID-19 pandemic by restricting travel and other activities during 2020, resulting in temporarily reduced emissions of CO 2 , other greenhouse gases and ozone and aerosol precursors. We perform a coordinated Intercomparison, CovidMIP, of Earth System model simulations to assess the impact on climate of these emissions reductions. Eleven models performed multiple initial-condition ensembles to produce over 280 simulations spanning both initial condition and model structural uncertainty. We find model consensus on reduced aerosol amounts (particularly over East Asia) and associated increases in surface shortwave radiation levels. However, any impact on near-surface temperature or rainfall during 2020-2024 is extremely small and is not detectable in this initial analysis. Regional analyses on a finer scale, and closer attention to extremes (especially linked to changes in atmospheric composition and air quality) are required to test the impact of COVID-19-related emission reductions on near-term climate.

54 ENVIRONMENTAL SCIENCES↗

CryoTEN: efficiently enhancing cryo-EM density maps using transformers

Abstract Motivation Cryogenic electron microscopy (cryo-EM) is a core experimental technique used to determine the structure of macromolecules such as proteins. However, the effectiveness of cryo-EM is often hindered by the noise and missing density values in cryo-EM density maps caused by experimental conditions such as low contrast and conformational heterogeneity. Although various global and local map-sharpening techniques are widely employed to improve cryo-EM density maps, it is still challenging to efficiently improve their quality for building better protein structures from them. Results In this study, we introduce CryoTEN—a 3D UNETR++ style transformer to improve cryo-EM maps effectively. CryoTEN is trained using a diverse set of 1295 cryo-EM maps as inputs and their corresponding simulated maps generated from known protein structures as targets. An independent test set containing 150 maps is used to evaluate CryoTEN, and the results demonstrate that it can robustly enhance the quality of cryo-EM density maps. In addition, automatic de novo protein structure modeling shows that protein structures built from the density maps processed by CryoTEN have substantially better quality than those built from the original maps. Compared to the existing state-of-the-art deep learning methods for enhancing cryo-EM density maps, CryoTEN ranks second in improving the quality of density maps, while running >10 times faster and requiring much less GPU memory than them. Availability and implementation The source code and data are freely available at https://github.com/jianlin-cheng/cryoten.

Biochemistry & Molecular Biology↗

Structural dynamics modeling of spent nuclear fuel during hypothetical package drop events

The response of spent nuclear fuel (SNF) to hypothetical package drop events is of particular interest in the scope of spent fuel storage and transportation because of the mechanical shock encountered in such scenarios. Previous testing and modeling by the U.S. Department of Energy has demonstrated that the shock and vibration environment of normal shipping and handling conditions (excluding package drop events) is relatively benign and does not challenge the integrity of spent nuclear fuel. Cask drop events are worth considering because SNF packages are required to withstand free drops onto unyielding surfaces as part of their licensing basis. The acceleration experienced during drop events can be orders of magnitude higher, and thus more advanced models are needed to encompass potential nonlinear behavior of the fuel, such as spacer grid buckling and rod-to-rod impact. This work describes a number of finite element models developed to calculate the response of spent nuclear fuel to various hypothetical drop events that have been validated by package and fuel assembly drop tests conducted in the last decade. Sensitivity of the model response to factors such as package drop orientation, secondary impacts, and irradiated material properties as well as their potential impacts to fuel cladding integrity, was also investigated. Cask drops are not expected as a regular occurrence during SNF transportation, but this work helps raise the understanding of SNF mechanical loads to the point of consistency with the package design requirements.

Kadooka, Kevin↗

Kronecker-structured covariance models for multiway data

Many applications produce multiway data of exceedingly high dimension. Modeling such multi-way data is important in multichannel signal and video processing where sensors produce multi-indexed data, e.g. over spatial, frequency, and temporal dimensions. We will address the challenges of covariance representation of multiway data and review some of the progress in statistical modeling of multiway covariance over the past two decades, focusing on tensor-valued covariance models and their inference. We will illustrate through a space weather application: predicting the evolution of solar active regions over time.

97 MATHEMATICS AND COMPUTING↗

Structural analyses of macromolecules by solution scattering (CRADA Final Report)

New innovative Small Angle X-ray Scattering (SAXS) methods to visualized macromolecules in solution at low resolution has led the SIBYLS group at Lawrence Berkeley Lab in being a world leader in biological SAXS. This research is particularly important now as LBNL establishes high-priority research topics including molecular to mesoscale analysis. This new expanding area of research relies on and ties in with our efforts towards developing a solution structure modeling tool for RNA structure prediction. Due to the pandemic our efforts focused on the SARS-CoV-2 proteins and RNA interactions. Specifically, we characterized SARS-CoC-2 proteins interaction with RNA (Wilanowski et al. 2021 -Hammel group) and Nucleoprotein interaction with RNA (Schneidman group).

59 BASIC BIOLOGICAL SCIENCES↗