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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 739 records · Page 41

All sources NASA NTRS DOE OSTI

DOE OSTI2019

Deciphering Off-Target Effects in CRISPR-Cas9 through Accelerated Molecular Dynamics

CRISPR-Cas9 is the state-of-the-art technology for editing and manipulating nucleic acids. However, the occurrence of off-target mutations can limit its applicability. Here, all-atom enhanced molecular dynamics (MD) simulations-using Gaussian accelerated MD (GaMD)-are used to decipher the mechanism of off-target binding at the molecular level. GaMD reveals that base pair mismatches in the target DNA at distal sites with respect to the protospacer adjacent motif (PAM) can induce an extended opening of the RNA:DNA heteroduplex, which leads to newly formed interactions between the unwound DNA and the L2 loop of the catalytic HNH domain. These conserved interactions constitute a "lock" effectively decreasing the conformational freedom of the HNH domain and hampering its activation for cleavage. Remarkably, depending on their positions at PAM distal sites, DNA mismatches responsible for off-target cleavages are unable to "lock" the HNH domain, thereby leading to the unselective cleavage of DNA sequences. In consistency with the available experimental data, the ability to "lock" the catalytic HNH domain in an inactive "conformational checkpoint" is shown to be a key determinant in the onset of off-target effects. This mechanistic rationale contributes in clarifying a long lasting open issue in the CRISPR-Cas9 function and poses the foundation for designing novel and more specific Cas9 variants, which could be obtained by magnifying the "locking" interactions between HNH and the target DNA in the presence of any incorrect off-target sequence, thus preventing undesired cleavages.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2015

MO-F-CAMPUS-I-03: GPU Accelerated Monte Carlo Technique for Fast Concurrent Image and Dose Simulation

Purpose: To develop an accurate and fast Monte Carlo (MC) method of simulating CT that is capable of correlating dose with image quality using voxelized phantoms. Methods: A realistic voxelized phantom based on patient CT data, XCAT, was used with a GPU accelerated MC code for helical MDCT. Simulations were done with both uniform density organs and with textured organs. The organ doses were validated using previous experimentally validated simulations of the same phantom under the same conditions. Images acquired by tracking photons through the phantom with MC require lengthy computation times due to the large number of photon histories necessary for accurate representation of noise. A substantial speed up of the process was attained by using a low number of photon histories with kernel denoising of the projections from the scattered photons. These FBP reconstructed images were validated against those that were acquired in simulations using many photon histories by ensuring a minimal normalized root mean square error. Results: Organ doses simulated in the XCAT phantom are within 10% of the reference values. Corresponding images attained using projection kernel smoothing were attained with 3 orders of magnitude less computation time compared to a reference simulation using many photon histories. Conclusion: Combining GPU acceleration with kernel denoising of scattered photon projections in MC simulations allows organ dose and corresponding image quality to be attained with reasonable accuracy and substantially reduced computation time than is possible with standard simulation approaches.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2025

PCMS: Parallel Coupler For Multimodel Simulations

This paper presents the Parallel Coupler for Multimodel Simulations (PCMS), a new GPU accelerated generalized coupling framework for coupling simulation codes on leadership class supercomputers. PCMS includes distributed control and field mapping methods for up to five dimensions. For field mapping PCMS can utilize discretization and field information to accommodate physics constraints. PCMS is demonstrated with a coupling of the gyrokinetic microturbulence code XGC with a Monte Carlo neutral transport code DEGAS2 and with a 5D distribution function coupling of an energetic particle transport code (GNET) to a gyrokinetic microturbulence code (GTC). Weak scaling is also demonstrated on up to 2,080 GPUs of Frontier with a weak scaling efficiency of 85%.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

NASA NTRS1992

DEPEND: A simulation-based environment for system level dependability analysis

The design and evaluation of highly reliable computer systems is a complex issue. Designers mostly develop such systems based on prior knowledge and experience and occasionally from analytical evaluations of simplified designs. A simulation-based environment called DEPEND which is especially geared for the design and evaluation of fault-tolerant architectures is presented. DEPEND is unique in that it exploits the properties of object-oriented programming to provide a flexible framework with which a user can rapidly model and evaluate various fault-tolerant systems. The key features of the DEPEND environment are described, and its capabilities are illustrated with a detailed analysis of a real design. In particular, DEPEND is used to simulate the Unix based Tandem Integrity fault-tolerance and evaluate how well it handles near-coincident errors caused by correlated and latent faults. Issues such as memory scrubbing, re-integration policies, and workload dependent repair times which affect how the system handles near-coincident errors are also evaluated. Issues such as the method used by DEPEND to simulate error latency and the time acceleration technique that provides enormous simulation speed up are also discussed. Unlike any other simulation-based dependability studies, the use of these approaches and the accuracy of the simulation model are validated by comparing the results of the simulations, with measurements obtained from fault injection experiments conducted on a production Tandem Integrity machine.

Goswami, Kumar↗

DOE OSTI2025

Aerosol Decline Accelerates the Increasing Extreme Precipitation in China

Extreme precipitation is becoming more intense and frequent. The increasing trends in extreme precipitation in China in warm season related to changes in aerosols and greenhouse gases (GHGs) are investigated using observations, reanalysis data and model simulations. A significant accelerating increase in extreme precipitation occurred around 2010, with the trend in accumulated extreme rainfall amount (R95pTOT) increasing from 2.88 mm per decade during 2000–2010 to 22.88 mm per decade during 2010–2023. The sudden acceleration of the increasing extreme precipitation is largely attributed to the reverse in aerosol trends associated with China’s clean air actions, which affects extreme precipitation through perturbing cloud microphysics and atmospheric dynamics, accounting for half of the change in R95pTOT trends. Future aerosol reduction to achieve carbon neutrality is shown to continue to intensify the extreme precipitation, which overweighs the effect induced by GHGs, highlighting the importance of aerosol changes in modulating future climate and weather extremes.

58 GEOSCIENCES↗

DOE OSTI2021

Vibration of a cryomodule’s coupler during road transportation: Multibody analysis and experimental validation

The road transportation of critical components for cryogenic cryomodules is a challenging task. Indeed, the shipping and the handling of fundamental sub-assemblies can expose these components to harmful dynamic loads that can jeopardize their structural integrity. This article has the purpose of developing a finite element multibody model capable of assessing the acceleration on a test coupler for a cavity of the Single Spoke Resonator 1 subjected to a typical road transportation trip. A multibody model consisting of rigid bodies and finite element–imported flexible bodies has been created allowing a comparison of the simulated and experimental acceleration. Afterwards, an experimental on-road test, whose set-up is described in this article, has been carried out at Fermilab with instrumented components. Being able to effectively simulate and validate the dynamic effects on such sub-assemblies makes it possible, for the future, to simulate more complex structures subject to dynamic loadings, such as the entire cryomodules during shipping. Furthermore, the results from the simulations can be used to guide the design of new suspension systems suitable for the reduction mitigation of structural vibration during the road transportation of cryomodules.

42 ENGINEERING↗

DOE OSTI2026

Learning Latent Representations to Bridge Coarse-Grained and Atomistic Resolutions in Polymer Simulations

We present a machine-learning-based framework for learning reduced-order representations of polymer chain conformations across coarse-grained (CG) and united-atom (UA) fidelities. By employing linear singular value decomposition and nonlinear autoencoders, we compress high-dimensional polymer configurations into latent spaces with minimal loss of structural accuracy. Crucially, we demonstrate a near-perfect linear mapping between CG and UA latent spaces, enabling an efficient super-resolution back-mapping procedure that reconstructs high-fidelity UA configurations from CG simulations. While minor structural inaccuracies occur, they are effectively corrected through a brief molecular dynamics relaxation, forming a practical hybrid machine learning−physics scheme. This approach establishes the key structural prerequisites for accelerated polymer dynamics simulations: a compact and accurate latent encoding of polymer chain conformations and a validated multi-fidelity mapping that permits reconstruction of UA structures from CG configurations. The extension of this framework to explicit time evolution within the latent space, enabling dynamics to be propagated at CG fidelity and decoded to UA resolution only when required, represents a natural and well-motivated direction for future work.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2016

Direct simulation Monte Carlo investigation of the Rayleigh-Taylor instability

In this paper, the Rayleigh-Taylor instability (RTI) is investigated using the direct simulation Monte Carlo (DSMC) method of molecular gas dynamics. Here, fully resolved two-dimensional DSMC RTI simulations are performed to quantify the growth of flat and single-mode perturbed interfaces between two atmospheric-pressure monatomic gases as a function of the Atwood number and the gravitational acceleration. The DSMC simulations reproduce many qualitative features of the growth of the mixing layer and are in reasonable quantitative agreement with theoretical and empirical models in the linear, nonlinear, and self-similar regimes. In some of the simulations at late times, the instability enters the self-similar regime, in agreement with experimental observations. Finally, for the conditions simulated, diffusion can influence the initial instability growth significantly.

42 ENGINEERING↗

NASA NTRS1976

Experimental study of transient dynamics of a flexible rotor

The results of an experimental program to investigate the transient response of a flexible rotor are presented. The program consisted of a series of tests conducted on a rig with a rotor designed to operate above its first bending critical speed. The purpose of the tests was to obtain experimental data on the transient behavior of a flexible rotor under conditions simulating those which might occur in a jet aircraft engine. The scope of the program included tests to measure the response of both balanced and unbalanced rotors during steady-state operation, acceleration, deceleration, and simulated blade loss.

Hibner, D. H.↗

NASA NTRS2018

Differential Adaptive Stress Testing of Airborne Collision Avoidance Systems

The next-generation Airborne Collision Avoidance System (ACAS X) is currently being developed and tested to replace the Traffic Alert and Collision Avoidance System (TCAS) as the next international standard for collision avoidance. To validate the safety of the system, stress testing in simulation is one of several approaches for analyzing near mid-air collisions (NMACs). Understanding how NMACs can occur is important for characterizing risk and informingdevelopment of the system. Recently, adaptive stress testing (AST) has been proposed as a way to find the most likely path to a failure event. The simulation-based approach accelerates search by formulating stress testing as a sequential decision process then optimizing it using reinforcement learning. The approach has been successfully applied to stress test a prototype of ACAS Xin various simulated aircraft encounters. In some applications, we are not as interestedin the system's absolute performance as its performance relative to another system. Such situations arise, for example, during regression testing or when deciding whether a new system should replace an existing system. In our collision avoidance application, we are interested in finding cases where ACAS X fails but TCAS succeeds in resolving a conflict. Existing approaches do not provide an efficient means to perform this type of analysis. This paper extends the AST approach to differential analysis by searching two simulators simultaneously and maximizing the difference between their outcomes. We call this approach differential adaptive stress testing (DAST). We apply DAST to compare a prototype of ACAS X against TCAS and show examples of encounters found by the algorithm.

Lee, Ritchie↗

DOE OSTI2021

Measuring Saturn's Electron Beam Energy Spectrum using Webb's Wedges

It is very difficult to measure the voltage of the load on the Saturn accelerator. Time-resolved measurements such as vacuum voltmeters and V-dot monitors are impractical at best and completely change the pulsed power behavior at the load at worst. We would like to know the load voltage of the machine so that we could correctly model the radiation transport and tune our x-ray unfold methodology and circuit simulations of the accelerator. Step wedges have been used for decades as a tool to measure the end - point energies of high energy particle beams. Typically, the technique is used for multi-megavolt accelerators, but we have adapted it to Saturn's modest <2 MV end-point energy and modified the standard bremsstrahlung x-ray source to extract the electron beam without changing the physics of the load region. We found clear evidence of high energy electrons >2 MV. We also attempted to unfold an electron energy spectrum using a machine learning algorithm and while these results come with large uncertainties, they qualitatively agree with PIC simulation results.

43 PARTICLE ACCELERATORS↗

DOE OSTI2014

Effective post-acceleration of ion bunches in foils irradiated by ultra-intense laser pulses

Two-step laser acceleration of protons with two foils and two laser pulses is modelled and optimized. It is shown that a nearly mono-energetic distribution of proton bunches can be realized by a suitable parameter choice. Two-step acceleration schemes make it possible to obtain both higher efficiency and energy as compared to the acceleration with only one laser pulse of an energy equal to the sum of the energy of the two pulses. With the aid of our analytical model, the optimal distance between the two targets, the delay between the two laser pulses, and the parameters of the laser pulses are determined. Estimates and results of the modelling are proven with 2D PIC simulations of the acceleration of proton bunches moving through the second target.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

NASA NTRS1992

A 6 degree-of-freedom Lorentz force vibration isolator with nonlinear controller

This program demonstrated the technical feasibility of constructing large-stroke magnetic suspensions that can meet the active vibration isolation requirements of Space Station. These requirements include: (1) strokes over 1 cm in all directions, (2) actuator bandwidths over 100 Hz, (3) isolator roll-off frequencies below 10(exp -2) Hertz, and (4) force capability over 1 Newton in all axes. The 100 Hz actuator bandwidth allows the suspension to reject any direct force disturbances that act on the microgravity experiment, for example forces created by cable connections. The low isolator roll-off frequency and large stroke allow the magnetic suspension to isolate the microgravity experiment from Space Station vibrations above the roll-off frequency. The capability to meet these requirements was demonstrated by designing, constructing and testing a six-degree-of-freedom, prototype magnetic suspension system that featured high-performance, Lorentz-force actuators and full multi-input, multi-output control. This prototype suspension is designed to isolate large orbiter locker experiments under typical spacecraft constraints of size, weight, and power. Suspension in the full six-degrees-of-freedom was successfully demonstrated in this program while using a gravity-force unload mechanism to simulate a space environment. The prototype isolator is capable of space-based isolation service with relatively minor modification. The use of advanced, nonlinear control algorithms were investigated on a specially designed single-degree-of-freedom testbed. This low acceleration test facility simulates the Space Station vibration isolation problem in a single horizontal axis with low-friction, air-slide support. This allowed testing at the desired microgravity levels, without the gravity bias effects that are seen in a full six-degrees-of-freedom suspension. Precision components were used to reduce residual accelerations to microgravity levels so that the effects of sensor, actuator, and electronic noise could be evaluated. During the Phase 2 program, this testbed was used to demonstrate the advantages of nonlinear control algorithms to provide increased vibration isolation performance.

Fenn, Ralph↗

DOE OSTI2015

PARTICLE ACCELERATION AND WAVE EXCITATION IN QUASI-PARALLEL HIGH-MACH-NUMBER COLLISIONLESS SHOCKS: PARTICLE-IN-CELL SIMULATION

We herein investigate shock formation and particle acceleration processes for both protons and electrons in a quasi-parallel high-Mach-number collisionless shock through a long-term, large-scale, particle-in-cell simulation. We show that both protons and electrons are accelerated in the shock and that these accelerated particles generate large-amplitude Alfvénic waves in the upstream region of the shock. After the upstream waves have grown sufficiently, the local structure of the collisionless shock becomes substantially similar to that of a quasi-perpendicular shock due to the large transverse magnetic field of the waves. A fraction of protons are accelerated in the shock with a power-law-like energy distribution. The rate of proton injection to the acceleration process is approximately constant, and in the injection process, the phase-trapping mechanism for the protons by the upstream waves can play an important role. The dominant acceleration process is a Fermi-like process through repeated shock crossings of the protons. This process is a “fast” process in the sense that the time required for most of the accelerated protons to complete one cycle of the acceleration process is much shorter than the diffusion time. A fraction of the electrons are also accelerated by the same mechanism, and have a power-law-like energy distribution. However, the injection does not enter a steady state during the simulation, which may be related to the intermittent activity of the upstream waves. Upstream of the shock, a fraction of the electrons are pre-accelerated before reaching the shock, which may contribute to steady electron injection at a later time.

79 ASTRONOMY AND ASTROPHYSICS↗

NASA NTRS2017

Surface-Height Determination of Crevassed Glaciers-Mathematical Principles of an Autoadaptive Density-Dimension Algorithm and Validation Using ICESat-2 Simulator (SIMPL) Data

Glacial acceleration is a main source of uncertainty in sea-level-change assessment. Measurement of ice-surface heights with a spatial and temporal resolution that not only allows elevation-change calculation, but also captures ice-surface morphology and its changes is required to aid in investigations of the geophysical processes associated with glacial acceleration.The Advanced Topographic Laser Altimeter System aboard NASAs future ICESat-2 Mission (launch 2017) will implement multibeam micropulse photon-counting lidar altimetry aimed at measuring ice-surface heights at 0.7-m along-track spacing. The instrument is designed to resolve spatial and temporal variability of rapidly changing glaciers and ice sheets and the Arctic sea ice. The new technology requires the development of a new mathematical algorithm for the retrieval of height information.We introduce the density-dimension algorithm (DDA) that utilizes the radial basis function to calculate a weighted density as a form of data aggregation in the photon cloud and considers density an additional dimension as an aid in auto-adaptive threshold determination. The auto-adaptive capability of the algorithm is necessary to separate returns from noise and signal photons under changing environmental conditions. The algorithm is evaluated using data collected with an ICESat-2 simulator instrument, the Slope Imaging Multi-polarization Photon-counting Lidar, over the heavily crevassed Giesecke Braer in Northwestern Greenland in summer 2015. Results demonstrate that ICESat-2 may be expected to provide ice-surface height measurements over crevassed glaciers and other complex ice surfaces. The DDA is generally applicable for the analysis of airborne and spaceborne micropulse photon-counting lidar data over complex and simple surfaces.

Herzfeld, Ute C.↗

DOE OSTI2022

Accelerating amorphous polymer electrolyte screening by learning to reduce errors in molecular dynamics simulated properties

Polymer electrolytes are promising candidates for the next generation lithium-ion battery technology. Large scale screening of polymer electrolytes is hindered by the significant cost of molecular dynamics (MD) simulation in amorphous systems: the amorphous structure of polymers requires multiple, repeated sampling to reduce noise and the slow relaxation requires long simulation time for convergence. Here, we accelerate the screening with a multi-task graph neural network that learns from a large amount of noisy, unconverged, short MD data and a small number of converged, long MD data. We achieve accurate predictions of 4 different converged properties and screen a space of 6247 polymers that is orders of magnitude larger than previous computational studies. Further, we extract several design principles for polymer electrolytes and provide an open dataset for the community. Our approach could be applicable to a broad class of material discovery problems that involve the simulation of complex, amorphous materials.

36 MATERIALS SCIENCE↗

DOE OSTI2015

ON THE POLAR CAP CASCADE PAIR MULTIPLICITY OF YOUNG PULSARS

We study the efficiency of pair production in polar caps of young pulsars under a variety of conditions to estimate the maximum possible multiplicity of pair plasma in pulsar magnetospheres. We develop a semi-analytic model for calculation of cascade multiplicity which allows efficient exploration of the parameter space and corroborate it with direct numerical simulations. Pair creation processes are considered separately from particle acceleration in order to assess different factors affecting cascade efficiency, with acceleration of primary particles described by recent self-consistent non-stationary model of pair cascades. We argue that the most efficient cascades operate in the curvature radiation/synchrotron regime, the maximum multiplicity of pair plasma in pulsar magnetospheres is ∼few × 10{sup 5}. The multiplicity of pair plasma in magnetospheres of young energetic pulsars weakly depends on the strength of the magnetic field and the radius of curvature of magnetic field lines and has a stronger dependence on pulsar inclination angle. This result questions assumptions about very high pair plasma multiplicity in theories of pulsar wind nebulae.

79 ASTRONOMY AND ASTROPHYSICS↗

NASA NTRS1990

Simulation of the collapse and dissipation of Langmuir wave packets

Particle-in-cell (PIC) simulations and Zakharov's partial differential equations (PDEs) are used to investigate the collapse of isolated Langmuir wave packets in two dimensions. Collapse thresholds are determined numerically, and the roles of enhanced Langmuir wave damping and nonlinearities not included in the standard Zakharov equations are discussed. The Langmuir wave and ion dynamics in PIC simulations are compared with the predictions of PDE simulations incorporating enhanced Langmuir damping. Electron heating and coherent acceleration in the PIC simulations are discussed and compared with predictions of the transit-time theory.

Newman, D. L.↗