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At least 1,225 records · Page 68

An O(N logN) multi-layer boundary element method for direct computation of sound propagation in shallow water environments

Direct three-dimensional (3D) numerical simulations of acoustic fields in range-dependent shallow water environments remains a challenge due to environmental complexities and large computational cost.We develop an efficient 3D boundary element method (BEM) for shallow water acoustic propagation which utilizes a Pre-corrected Fast Fourier Transform (PFFT) approach to reduce the computational effort from O ( N 2~3 ) to O ( N log N ) where N is the total number of boundary unknowns. To account for inhomogeneous media, the method allows for arbitrary number of coupled multi-layer BEM sub-domains. With O ( N log N ) efficiency and the use of massively parallel high-performance computing platforms, we are able to conduct multi-layer 3D direct simulations of low-mid frequency acoustics over kilometer ranges. Furthermore we perform extensive validations of the method and provide two shallow water waveguide examples benchmarked against theoretical solutions. To illustrate the efficacy and usefulness of the PFFT-BEM method, we perform 3D large-scale direct simulations to assess the performance of two established canonical models: axisymmetric coupled mode model for 3D seamount; and Kirchhoff approximation and perturbation theory for 3D rough surface scattering.

42 ENGINEERING↗

Integrin α5 mediates intrinsic cisplatin resistance in three-dimensional nasopharyngeal carcinoma spheroids via the inhibition of phosphorylated ERK /caspase-3 induced apoptosis

Highlights: • Highly expressed integrin α5 was observed in in vitro three-dimensional NPC spheroids. • The overexpression of integrin α5 in NPC spheroids demonstrated a correlation with intrinsic cisplatin resistance. • The integrin α5-induced intrinsic cisplatin resistance was mediated by an inactivation of ERK/caspase-3-induced apoptosis. • ATN-161, an integrin α5β1 inhibitor, reduced integrin α5 expression and increased sensitization to cisplatin in NPC spheroids. • ATN-161 reversed the intrinsic cisplatin resistance in NPC spheroids by reactivating ERK/caspase-3-induced apoptosis. Nasopharyngeal carcinoma (NPC) originates in the nasopharynx epithelium. Although concurrent chemoradiation therapy followed by chemotherapy is considered as an effective treatment, there is substantial drug resistance in locally advanced NPC patients. One major contributor to the chemoresistance includes aberrant expression of cell adhesion molecules, such as integrin α and β subunits, giving rise to cell adhesion-mediated drug resistance. Thus, the aim of this study was to investigate the effect of integrin α5 on the development of intrinsic cisplatin resistance in NPC and the associated underlying mechanisms using in vitro three-dimensional (3D) spheroid models, as well as induced cisplatin-resistant NPC (NPCcisR). We demonstrated that established 3D highly- (5-8F) and lowly- (6-10B) metastatic NPC spheroids overexpressed integrin α5 and aggravated their resistance to cisplatin. Besides, enhanced integrin α5 resulted in substantially reduced growth, corresponding to G{sub 0}/G{sub 1} and G{sub 2}/M cell cycle arrest. In addition, 5-8FcisR and 6-10BcisR cells in 3D forms synergistically strengthened endurance of their spheroids to cisplatin treatment as observed by increased resistance index (RI) and decreased apoptosis. Mechanistically, the aberrantly expressed integrin α5 decreased drug susceptibility in NPC spheroids by inactivating ERK and inhibition of caspase-3 inducing apoptosis. Furthermore, the effect of integrin α5 inducing intrinsic resistance was verified via treatment with ATN-161, a peptide inhibitor for integrin α5β1. The results showed dramatic reduction in integrin α5 expression, reversal of ERK phosphorylation and caspase-3 cleavage, together with elevated cisplatin sensitivity, indicating regulation of innate drug resistance via integrin α5. Taken together, our findings suggest that integrin α5 could act as a promising target to enhance the chemotherapeutic sensitivity in NPC.

60 APPLIED LIFE SCIENCES↗

NMPFamsDB: a database of novel protein families from microbial metagenomes and metatranscriptomes

Abstract The Novel Metagenome Protein Families Database (NMPFamsDB) is a database of metagenome- and metatranscriptome-derived protein families, whose members have no hits to proteins of reference genomes or Pfam domains. Each protein family is accompanied by multiple sequence alignments, Hidden Markov Models, taxonomic information, ecosystem and geolocation metadata, sequence and structure predictions, as well as 3D structure models predicted with AlphaFold2. In its current version, NMPFamsDB hosts over 100 000 protein families, each with at least 100 members. The reported protein families significantly expand (more than double) the number of known protein sequence clusters from reference genomes and reveal new insights into their habitat distribution, origins, functions and taxonomy. We expect NMPFamsDB to be a valuable resource for microbial proteome-wide analyses and for further discovery and characterization of novel functions. NMPFamsDB is publicly available in http://www.nmpfamsdb.org/ or https://bib.fleming.gr/NMPFamsDB.

59 BASIC BIOLOGICAL SCIENCES↗

Performance Portability of the Aeras Atmosphere Model to Next Generation Architectures using Kokkos

The subject of this report is the performance portability of the Aeras global atmosphere dynamical core (implemented within the Albany multi-physics code) to new and emerging architecture machines using the Kokkos library and programming model. We describe the process of refactoring the finite element assembly process for the 3D hydrostatic model in Aeras and highlight common issues associated with development on GPU architectures. After giving detailed build and execute instructions for Aeras with MPI, OpenMP and CUDA on the Shannon cluster at Sandia National Laboratories and the Titan supercomputer at Oak Ridge National Laboratory, we evaluate the per- formance of the code on a canonical test case known as the baroclinic instability problem. We show a speedup of up to 4 times on 8 OpenMP threads, but we were unable to achieve a speedup on the GPU due to memory constraints. We conclude by providing methods for improving the performance of the code for future optimization.

97 MATHEMATICS AND COMPUTING↗

Evaluation and development of satellite inferences of convective storm intensity using combined case study and thunderstorm model simulations

Observational requirements for predicting convective storm development and intensity as suggested by recent numerical experiments are examined. Recent 3D numerical experiments are interpreted with regard to the relationship between overshooting tops and surface wind gusts. The development of software for emulating satellite inferred cloud properties using 3D cloud model predicted data and the simulation of Heymsfield (1981) Northern Illinois storm are described as well as the development of a conceptual/semi-quantitative model of eastward propagating, mesoscale convective complexes forming to the lee of the Rocky Mountains.

Cotton, W. R.↗

Geometric Reasoning for Automated Planning

An important aspect of mission planning for NASA s operation of the International Space Station is the allocation and management of space for supplies and equipment. The Stowage, Configuration Analysis, and Operations Planning teams collaborate to perform the bulk of that planning. A Geometric Reasoning Engine is developed in a way that can be shared by the teams to optimize item placement in the context of crew planning. The ISS crew spends (at the time of this writing) a third or more of their time moving supplies and equipment around. Better logistical support and optimized packing could make a significant impact on operational efficiency of the ISS. Currently, computational geometry and motion planning do not focus specifically on the optimized orientation and placement of 3D objects based on multiple distance and containment preferences and constraints. The software performs reasoning about the manipulation of 3D solid models in order to maximize an objective function based on distance. It optimizes for 3D orientation and placement. Spatial placement optimization is a general problem and can be applied to object packing or asset relocation.

Clement, Bradley J.↗

Synergy of Observations and Dynamo Models to Understand and Predict Solar Activity Cycles

The long-standing problem of understanding the evolution of the global magnetic fields that drive solar activity through different temporal scales is becoming more tractable because, in addition to 400 years of sunspot records, we now have almost 4 solar cycles of magnetic field observations. These observations allow us to discern physical connections between dynamo model variables and observations using data assimilation analysis. In particular, the Ensemble Kalman Filter approach takes into account uncertainties in both observations and modeling and allows us to make reliable forecasts of solar cycle activity cycles by using a relatively simple non-linear dynamical model of the solar dynamo. To expand this approach for more complex 2D and 3D dynamo modeling, it is necessary to decompose the observed synoptic magnetograms into poloidal and toroidal field components. In this presentation I will present initial results on magnetogram decomposition and assimilation of magnetogram data into dynamo modeling.

Synergy↗

Synergy of Observations and Dynamo Models to Understand and Predict Solar Activity Cycles

The long-standing problem of understanding the evolution of the global magnetic fields that drive solar activity through different temporal scales is becoming more tractable because, in addition to 400 years of sunspot records, we now have almost 4 solar cycles of magnetic field observations. These observations allow us to discern physical connections between dynamo model variables and observations using data assimilation analysis. In particular, the Ensemble Kalman Filter approach takes into account uncertainties in both observations and modeling and allows us to make reliable forecasts of solar cycle activity by using a relatively simple non-linear dynamical model of the solar dynamo. To expand this approach for more complex 2D and 3D dynamo modeling, it is necessary to decompose the observed synoptic magnetograms into poloidal and toroidal field components. In this presentation I will present initial results on magnetogram decomposition and assimilation of magnetogram data into dynamo modeling.

Kitiashvili, Irina N.↗

Comprehension of Spatial Constraints by Neural Logic Learning from a Single RGB-D Scan

Autonomous industrial assembly relies on the precise measurement of spatial constraints as designed by computer-aided design (CAD) software such as SolidWorks. This paper proposes a framework for an intelligent industrial robot to understand the spatial constraints for model assembly. An extended generative adversary network (GAN) with a 3D long short-term memory (LSTM) network was designed to composite 3D point clouds from a single RGB-D scan. The spatial constraints of the segmented point clouds are identified by a neural-logic network that incorporates general knowledge of spatial constraints in terms of first-order logic. The model was designed to comprehend a complete set of spatial constraints that are consistent with industrial CAD software, including left, right, above, below, front, behind, parallel, perpendicular, concentric, and coincident relations. The accuracy of 3D model composition and spatial constraint identification was evaluated by the RGB-D scans and 3D models in the ABC dataset. The proposed model achieved 57.23% intersection over union (IoU) in 3D model composition, and over 99% in comprehending all spatial constraints.

Wang, Dali↗

Machine Learning‐Assisted Microearthquake Location Workflow for Monitoring the Newberry Enhanced Geothermal System

Abstract Enhanced geothermal systems (EGS) offer a sustainable energy source but face challenges in accurately locating microearthquakes induced during reservoir stimulation. Locating these microearthquakes provides reliable feedback on the stimulation progress. Current deep learning methods for locating earthquakes require extensive data sets for training, which is problematic as detected microearthquakes are often limited. To address the scarcity of training data, we propose a practical workflow using probabilistic multilayer perceptron (PMLP) which predicts microearthquake locations from cross‐correlation time lags in waveforms. Utilizing a 3D velocity model of Newberry site derived from ambient noise interferometry, we generate numerous synthetic microearthquakes and 3D acoustic waveforms for PMLP training. Accurate synthetic tests prompt us to apply the trained network to the 2012 and 2014 stimulation field waveforms. To enhance the accuracy of source localization, we carefully handpick the P‐arrival times. Predictions on the 2012 stimulation data set show major microseismic activity at depths of 0.5–1.2 km, correlating with a known casing leakage scenario. In the 2014 data set, the majority of predictions concentrate at 2.0–2.9 km depths, consistent with results obtained from conventional physics‐based inversion, and align with the presence of natural fractures from 2.0 to 2.7 km. We validate our findings by comparing the synthetic and field picks, demonstrating a satisfactory match for the first arrivals. By combining the benefits of quick inference speeds and accurate location predictions, we demonstrate the feasibility of using realistic synthetic data set to locate microseismicity for EGS monitoring.

15 GEOTHERMAL ENERGY↗

An analysis of nearfield normal mode amplitude anomalies of the Landers earthquake

The 1992 Landers earthquake (M(sub w) = 7.3) occurred in the middle of the TERRAscope network. Long-period Rayleigh waves recorded at the TERRAscope stations (delta less than or = 3 deg) after traveling around the Earth show large amplitude anomalies, one order of magnitude larger than spherical Earth predictions up to a period of about 600 s. The ground motions over the epicentral region at and after the arrival of R4-5 are in phase at all stations. These observations are inconsistent with the nearly vertical strike slip mechanism of the Landers earthquake. Synthetic seismograms for a rotating, elliptic, and laterally heterogeneous Earth model calculated by the variational method agree well with the observed waveforms. Calculations for various 3D Earth models demonstrate that the amplitudes are very sensitive to the large scale aspherical structure in the crust and the mantle. The anomalies for modes shorter than 300 s period can be explained by lateral heterogeneity shallower than the upper mantle. Rotation of the Earth and lower mantle heterogeneity are required to explain mode amplitudes at longer periods. Current whole mantle seismic tomographic models can fully explain the observed amplitudes longer than 300 s. To assess the effect of the high order lateral heterogeneity in the mantle more precise estimate of the crustal correction is required.

Watada, Shingo↗

3D Reconstruction, Augmented Reality, and Telerobotic Operation - 18297

For nuclear facility decommissioning and waste cleanup, it is necessary to deploy simple and robust robots in remote sites performing precise and dexterous manipulation under teleoperation. To meet the challenge, this paper presents a new remote operation method based on augmented reality for intuitive and efficient teleoperation. The enhanced teleoperation system incorporates three technology components - 3D sensing and reconstruction, augmented reality, and teleoperation. The 3D reconstruction technology utilizes 3D cameras and constructs a 3D geometric model of the environment. Compared to the state-of-the- art technology, the presented 3D reconstruction has greater spatial precision and dynamic object tracking capability, which enhances the precision of manipulation tasks in a dynamic environment. The augmented reality technology entails generation of virtual surfaces of various geometries and dynamic characteristics, as well as consistent perceptual overlay in camera, robot and operator hand control spaces. Teleoperation is demonstrated with a dual-arm robot system operated under Robot Operating System (ROS). (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

3D Finite Element Analysis of Particle-Reinforced Aluminum

Deformation in particle-reinforced aluminum has been simulated using three distinct types of finite element model: a three-dimensional repeating unit cell, a three-dimensional multi-particle model, and two-dimensional multi-particle models. The repeating unit cell model represents a fictitious periodic cubic array of particles. The 3D multi-particle (3D-MP) model represents randomly placed and oriented particles. The 2D generalized plane strain multi-particle models were obtained from planar sections through the 3D-MP model. These models were used to study the tensile macroscopic stress-strain response and the associated stress and strain distributions in an elastoplastic matrix. The results indicate that the 2D model having a particle area fraction equal to the particle representative volume fraction of the 3D models predicted the same macroscopic stress-strain response as the 3D models. However, there are fluctuations in the particle area fraction in a representative volume element. As expected, predictions from 2D models having different particle area fractions do not agree with predictions from 3D models. More importantly, it was found that the microscopic stress and strain distributions from the 2D models do not agree with those from the 3D-MP model. Specifically, the plastic strain distribution predicted by the 2D model is banded along lines inclined at 45 deg from the loading axis while the 3D model prediction is not. Additionally, the triaxial stress and maximum principal stress distributions predicted by 2D and 3D models do not agree. Thus, it appears necessary to use a multi-particle 3D model to accurately predict material responses that depend on local effects, such as strain-to-failure, fracture toughness, and fatigue life.

Shen, H.↗

Rapid Model Import Tool (RMIT)

Our project is about developing a tool to implement conversion of 3D Computer Aided Design (CAD) models produced with software such as Delmia, 3DS Max, or Maya, into a size and format compatible with the Unity 3D environment. RMIT will be used to aid KSC engineering personnel in the design, development, testing, operations, and training on spacecraft, launch vehicles, facilities, and ground support equipment. For our project, we are using Blender, a free/open-source 3D graphics software, with the goal of developing, testing, and deploying a 3D CAD model converter tool. I worked on using Blender to import 3D CAD models exported from CATIA software into Collada file format. The Collada file format has file extension DAE. Importing the Collada DAE file as is into Blender, generates dots and dashes. In 3DS Max, there is an existing OpenCollada plugin and with that plugin, 3DS Max can import the DAE file successfully. But, Blender does not seem to have an OpenCollada plugin, so I worked on writing a new OpenCollada plugin for Blender. Since 3DS Max was able to display the image, I looked into comparing differences between the original DAE file and the DAE file exported from 3DS Max using the OpenCollada plugin. As Collada documents describing digital assets are XML files with file extension DAE, Collada files contains XML tags, making them easily modifiable. After some research, it appears that Blender does not like primitive 2D tags like tristrips and trifans. Changing those tags to polygons slightly improved the image, but the pieces were exploded. I found after further research comparing differences between the original file and the file exported from 3DS Max that the values inside the translate tags in the original file are scaled down by a factor of 25.4 in the exported file from 3DS Max, representing the millimeters to inches conversion (1 inch = 25.4 millimeters). After scaling down values inside all of the translate tags by 25.4, the exploded pieces stuck back in, but the image needed further improvement. I have been able to create a new plugin in Blender that takes the original DAE file, replaces the primitive 2D tags tristrips and trifans with polygons, scales down the values inside the translate tags by a factor of 25.4, and saves the changes into a temporary DAE file. After the temporary DAE file is imported into Blender, the temp file is then deleted, keeping the original DAE file intact. Starting with a DAE file that is exported using the NASA Enterprise Visualization Application (NEVA), a Collada exporter, from CATIA gives better results. NEVA is a Design Visualization product that is used for exporting 3D models from CATIA. With NEVA, the up axis is defined in the top-level node if navigation gravity is enabled. With that file, just replacing the primitive tags tristrips and trifans with polygons in yields a much improved image in Blender. As we identify more differences between the original DAE file and the DAE file exported from 3DS Max, this plugin can be improved further. Our goal is to have a model that is formatted and sized for import into Unity, and we are trying out different 3D programs to see which will work best.

Ayyangar, Arjun↗

Transient Analysis of Thermal Protection System for X-33 Aircraft using MSC/NASTRAN

X-33 is an advanced technology demonstrator vehicle for the Reusable Launch Vehicle (RLV) program. The thermal protection system (TPS) for the X-33 is composed of complex layers of materials to protect internal components, while withstanding severe external temperatures induced by aerodynamic heating during high speed flight. It also serves as the vehicle aeroshell in some regions using a stand-off design. MSC/NASTRAN thermal analysis capability was used to predict transient temperature distribution (within the TPS) throughout a mission, from launch through the cool-off period after landing. In this paper, a typical analysis model, representing a point on the vehicle where the liquid oxygen tank is closest to the outer mold line, is described. The maximum temperature difference between the outer mold line and the internal surface of the liquid oxygen tank can exceed 1500 F. One dimensional thermal models are used to select the materials and determine the thickness of each layer for minimum weight while insuring that all materials remain within the allowable temperature range. The purpose of working with three dimensional (3D) comprehensive models using MSC/NASTRAN is to assess the 3D radiation effects and the thermal conduction heat shorts of the support fixtures.

Miura, Hirokazu↗

Final Report for USGS NEHRP Project 08HQGR0022

This is the final report for United States Geological Survey (USGS) National Earthquake Hazard Reduction Program (NEHRP) Project 08HQGR0022, entitled “Quantifying Uncertainties in Ground Motion Simulations for Scenario Earthquakes on the HaywardRodgers Creek Fault System Using the USGS 3D Seismic Velocity Model and Realistic Pseudodynamics Ruptures”. Work for this project involved three-dimensional (3D) simulations of ground motions for Hayward Fault (HF) earthquakes. We modeled moderate events on the HF and used them to evaluate the USGS 3D model of the San Francisco Bay Area. We also contributed to ground motions modeling effort for a large suite of scenario earthquakes on the HF. Results were presented at conferences (see appendix) and in one peer-reviewed publication (Aagaard et al., 2010).

58 GEOSCIENCES↗