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NASA NTRS2011

Atomistic Simulations of Complex DNA DSBs and the Interactions with Ku70/80 Heterodimer

Compared to DNA with simple DSBs, the complex lesions can enhance the hydrogen bonds opening rate at the DNA terminus, and increase the mobility of the whole duplex. Binding of Ku drastically reduces the structural disruption and flexibility caused by the complex lesions. In all complex DSBs systems, the binding of DSB terminus with Ku70 is softened while the binding of the middle duplex with Ku80 is tightened. Binding of Ku promotes the rigidity of DNA duplexes, due to the clamp structure of the inner surface of the rings of Ku70/80.

Hu, Shaowen↗

NASA NTRS1993

SimTool - An object based approach to simulation construction

The creation and maintenance of large complex simulations can be a difficult and error prone task. A number of interactive and automated tools have been developed to aid in simulation construction and maintenance. Many of these tools are based upon object oriented analysis and design concepts. One such tool, SimTool, is an object based integrated tool set for the development, maintenance, and operation of large, complex and long lived simulations. This paper discusses SimTool's object based approach to simulation design, construction and execution. It also discusses the services provided to various levels of SimTool users to assist them in a wide range of simulation tasks. Also, with the aid of an implemented and working simulation example, this paper discusses SimTool's key design and operational features. Finally, this paper presents a condensed discussion of SimTool's Entity-Relationship-Attribute (ERA) modeling approach.

Crues, Edwin Z.↗

NASA NTRS2016

A Fly-Through Mission Strategy Targeting Peptide as a Signature of Chemical Evolution and Possible Life in Enceladus Plumes

In situ detection of organic molecules in the extraterrestrial environment provides a key step towards better understanding the variety and the distribution of building blocks of life and it may ultimately lead to finding extraterrestrial life within the Solar System. Here we present combined results of two separate experiments that enable us to realize such in situ life signature detection from the deep habitats of the "Ocean World": a hydrothermal reactor experiment simulating complex organic synthesis and a simulated fly-through capture experiment of organic-bearing microparticles using silica aerogels, followed by subsequent analysis. Both experiments employ peptide as a plausible organics existing in Encleadus plume particles produced in its subsurface ocean. Recent laboratory hydrothermal experiments and a theoretical model on silica saturation indicated an on going hydrothermal reactions in subsurface Enceladus ocean. Given the porous chondritic origin of the core, it is likely that organic compounds originated by radiation chemistry such as amino acid precursors could have been provided, leached, and altered through widespread water-rock interactions. By using the same laboratory experimental setup from the latest water-rock interaction study, we performed amino acid polymerization experiments for 144 days and monitored the organic complexity changing over time. So far over 3,000 peaks up to the size of greater than 600 MW were observed through the analysis of capillary electrophoresis time-of-flight mass spectrometry (CE-TOF-MS) with an indication of amino acid derivatives and short peptides. Generally abiotic polymerization of enantiomeric amino acids results in forming stereoisomeric peptides with identical molecular weight and formula as opposed to homochiral biopolymers. Assuming Enceladus plume particles may contain a mixture of stereoisomeric peptides, we were able to distinguish 16 of the 17 stereoisomeric tripeptides as a test sample using capillary electrophoresis (CE) under optimized conditions. We further conducted Enceladus plume fly-through capture experiment by accelerating peptides soaked in rock particles up to a speed of 5.7 km/s and capturing with originally developed hydrophobic silica aerogels. Direct peptide extraction with acetonitrile-water followed by CE analysis led to detection of only but two stereoisomeric acidic peptide peaks, presenting the first run-through hypervelocuty impact sample analysis targeting peptides as key molecule to to understand the ongoing astrobiology on Enceladus.

organic molecules↗

NASA NTRSDate not supplied

The Effect of Temperature on the Preservation of Volatile-Rich Lunar Samples

Introduction. The Moon’s south pole is a high-priority target for human exploration and scientific study. This interest is, in part, due to the presence of Permanently Shadowed Regions (PSRs), which could contain high concentrations of unique volatiles at cryogenic temperatures [1]. Returned samples from PSRs may include a unique combination of rocks, regolith, and volatile species, providing unprecedented insights into the history of the Solar System and the potential for resource utilization on the Moon. However, because PSR samples are cryogenic up-on collection, lunar polar sample return will eventually require cold stowage for the journey from the Moon to Earth. Without cold stowage, PSR sample return will likely result in phase changes and chemical reactions within the volatile component of the sample, which would negatively impact the resulting scientific studies of those samples. This abstract summarizes the initial results from an ongoing characterization of analog PSR samples at a range of temperatures, with the goal of defining the temperatures needed for a flight cold stowage freezer. Background. Based on remote sensing observations of the Moon [2], south polar PSRs range in temperature from ~120K for small and/or shallow PSRs to ~20K at the most extreme locations in large, deep PSRs. A range of volatiles have been hypothesized to exist at the surface or subsurface of the lunar poles [3-5 and others]. This hypothesis was verified when the LCROSS mission impacted the <50-K PSR in the crater Cabeus, detecting a range of volatiles from water to low condensation temperature species such as H2S and methane [6]. Species such as H2S and ammonia (also detected by LCROSS) are also highly reactive, and increase the likelihood of chemical reactions at elevated (non-cryogenic) temperatures. At the Johnson Space Center’s Planetary Exploration and Astromaterials Research Laboratory (JSC-PEARL), we have developed a volatile-bearing lunar simulant that incorporates several of the species detected by LCROSS [Table 1] mixed cryogenically with the USGS Lunar Highlands Type (LHT) regolith simulant. The new volatile-regolith simulant will be used to assess the degree of sample alteration at room temperature, -20°C, -80°C, and -196°C (liquid nitro-gen), over a two-week period. Room temperature samples represent those likely to be returned during initial missions without cold stowage, -20°C provides an analog to Apollo cold curated samples, -80°C is the temperature of multiple flight payload freezers (e.g., MELFI), and -196°C is analogous to lunar PSRs. Two weeks is an approximation of the time between sample collection and Earth return for initial Artemis missions. Over this period of time, sample head-space gases will be analyzed using a Universal Gas Analyzer (UGA, a type of mass spectrometer) coupled with a Baratron pressure sensor. After testing, the regolith component of the simulant will be purged of volatiles and preserved for future electron beam and/or FTIR analysis. Experimental Procedure. Volatile-regolith simulants will be produced as an initial homogenous batch; this batch will then be distributed into aliquots (gas chromatography/GC vials or cryo vials), ensuring that each sample has the same starting composition and conditions [Fig. 1]. In addition to the “full” simulant shown in Table 1, less complex simulant compositions will be used as baseline and control samples [Table 2]. Aliquots will be produced in triplicate for each simulant composition, storage temperature, and date of sampling. Headspace gases in all Day 0 samples will be analyzed by the UGA immediately. Cold storage samples for future analytical days will be placed in freezers appropriate to their target temperatures (-20°C, -80°C, -196°C). For ambient-temperature samples, regolith and regolith-water samples will be stored in a fume hood, while the full simulant will be stored in a sealed Parr vessel for safety; no other simulants (RWCM/ RWCM+) will be stored at ambient temperature for this test. Samples will be analyzed by UGA in this manner on each Analysis Day outlined in Table 2. Analytical Data. The UGA measures the partial pressures in a single sample aliquot over a set mass range of 0-105 atomic mass units (AMU) [Figure 2]; this set range was selected to slightly exceed the mass of the highest-mass expected reaction product (H2SO4). The Baratron complements the UGA by measuring the total pressure in the headspace of a sample vial. Coupled together, the quantitative abundances of gases will be monitored throughout the test. UGA analyses of the triplicate samples for each storage temperature, day, and simulant composition will be averaged, and standard deviations for each will be calculated. The compositions of starting species (shown in Table 1) will be characterized as a function of time, and the presence of any new compounds (reaction products) will be monitored as well. Total pressures will be recorded for each sample analysis, and any samples that show signs of leakage (e.g., a significant reduction in pressure or simulant volatiles) will be discarded. Anticipated Results. Testing is planned to begin in January 2022. The resulting data will allow compositional and phase changes in the volatile component of the simulants to be determined. Both the reduction in initial compounds and the addition of reaction products are expected to be observed. In addition, the relative efficacy of the different temperatures at pre-serving the initial composition of the simulants will be quantified. Finally, the regolith component of each sample will be argon-purged and stored in a controlled environment for future laboratory analysis. Compositional and morphological changes in the regolith are expected for samples above 0°C. This test will be repeated three times over the course of 2022. Understanding the effect of temperature on both the volatile and regolith components of analog lunar materials will allow requirements for a cold stowage freezer to be developed. The implementation of cold stowage for lunar polar missions will maximize the preservation of returned samples, enabling ground-breaking lunar and Solar System volatiles science for decades to come.

J L Mitchell↗

NASA NTRS2015

Statistical Analysis of Large Simulated Yield Datasets for Studying Climate Effects

Many studies have been carried out during the last decade to study the effect of climate change on crop yields and other key crop characteristics. In these studies, one or several crop models were used to simulate crop growth and development for different climate scenarios that correspond to different projections of atmospheric CO2 concentration, temperature, and rainfall changes (Semenov et al., 1996; Tubiello and Ewert, 2002; White et al., 2011). The Agricultural Model Intercomparison and Improvement Project (AgMIP; Rosenzweig et al., 2013) builds on these studies with the goal of using an ensemble of multiple crop models in order to assess effects of climate change scenarios for several crops in contrasting environments. These studies generate large datasets, including thousands of simulated crop yield data. They include series of yield values obtained by combining several crop models with different climate scenarios that are defined by several climatic variables (temperature, CO2, rainfall, etc.). Such datasets potentially provide useful information on the possible effects of different climate change scenarios on crop yields. However, it is sometimes difficult to analyze these datasets and to summarize them in a useful way due to their structural complexity; simulated yield data can differ among contrasting climate scenarios, sites, and crop models. Another issue is that it is not straightforward to extrapolate the results obtained for the scenarios to alternative climate change scenarios not initially included in the simulation protocols. Additional dynamic crop model simulations for new climate change scenarios are an option but this approach is costly, especially when a large number of crop models are used to generate the simulated data, as in AgMIP. Statistical models have been used to analyze responses of measured yield data to climate variables in past studies (Lobell et al., 2011), but the use of a statistical model to analyze yields simulated by complex process-based crop models is a rather new idea. We demonstrate herewith that statistical methods can play an important role in analyzing simulated yield data sets obtained from the ensembles of process-based crop models. Formal statistical analysis is helpful to estimate the effects of different climatic variables on yield, and to describe the between-model variability of these effects.

climate↗

NASA NTRS2002

Propulsion Simulations with the Unstructured-Grid CFD Tool TetrUSS

A computational investigation has been completed to assess the capability of the NASA Tetrahedral Unstructured Software System (TetrUSS) for simulation of exhaust nozzle flows. Three configurations were chosen for this study: (1) a fluidic jet effects model, (2) an isolated nacelle with a supersonic cruise nozzle, and (3) a fluidic pitchthrust- vectoring nozzle. These configurations were chosen because existing data provided a means for measuring the ability of the TetrUSS flow solver USM3D for simulating complex nozzle flows. Fluidic jet effects model simulations were compared with structured-grid CFD (computational fluid dynamics) data at Mach numbers from 0.3 to 1.2 at nozzle pressure ratios up to 7.2. Simulations of an isolated nacelle with a supersonic cruise nozzle were compared with wind tunnel experimental data and structured-grid CFD data at Mach numbers of 0.9 and 1.2, with a nozzle pressure ratio of 5. Fluidic pitch-thrust-vectoring nozzle simulations were compared with static experimental data and structured-grid CFD data at static freestream conditions and nozzle pressure ratios from 3 to 10. A fluidic injection case was computed with the third configuration at a nozzle pressure ratio of 4.6 and a secondary pressure ratio of 0.7. Results indicate that USM3D with the S-A turbulence model provides accurate exhaust nozzle simulations at on-design conditions, but does not predict internal shock location at overexpanded conditions or pressure recovery along a boattail at transonic conditions.

Deere, Karen A.↗

NASA NTRS2004

Propulsion Simulations Using Advanced Turbulence Models with the Unstructured Grid CFD Tool, TetrUSS

A computational investigation has been completed to assess the capability of TetrUSS for exhaust nozzle flows. Three configurations were chosen for this study (1) an axisymmetric supersonic jet, (2) a transonic axisymmetric boattail with solid sting operated at different Reynolds number and Mach number, and (3) an isolated non-axisymmetric nacelle with a supersonic cruise nozzle. These configurations were chosen because existing experimental data provided a means for measuring the ability of TetrUSS for simulating complex nozzle flows. The main objective of this paper is to validate the implementation of advanced two-equation turbulence models in the unstructured-grid CFD code USM3D for propulsion flow cases. USM3D is the flow solver of the TetrUSS system. Three different turbulence models, namely, Menter Shear Stress Transport (SST), basic k epsilon, and the Spalart-Allmaras (SA) are used in the present study. The results are generally in agreement with other implementations of these models in structured-grid CFD codes. Results indicate that USM3D provides accurate simulations for complex aerodynamic configurations with propulsion integration.

Abdol-Hamid, Khaled S.↗

NASA NTRS1989

The need for enhanced initial moisture information in simulations of a complex summertime precipitation event

Initial simulations of the June 28, 1986 Cooperative Huntsville Meteorological Experiment case illustrate the need for mesoscale moisture information in a summertime situation in which deep convection is organized by weak large scale forcing. A methodology is presented for enhancing the initial moisture field from a combination of IR satellite imagery, surface-based cloud observations, and manually digitized radar data. The Mesoscale Atmospheric Simulation Model is utilized to simulate the events of June 28-29. This procedure insures that areas known to have precipitation at the time of initialization will be nearly saturated on the grid scale, which should decrease the time needed by the model to produce the observed Bonnie (a relatively weak hurricane that moved on shore two days before) convection. This method will also result in an initial distribution of model cloudiness (transmissivity) that is very similar to that of the IR satellite image.

Waight, Kenneth T., III↗

NASA NTRS2008

Simulating Operation of a Complex Sensor Network

Simulation Tool for ASCTA Microsensor Network Architecture (STAMiNA) ["ASCTA" denotes the Advanced Sensors Collaborative Technology Alliance.] is a computer program for evaluating conceptual sensor networks deployed over terrain to provide military situational awareness. This or a similar program is needed because of the complexity of interactions among such diverse phenomena as sensing and communication portions of a network, deployment of sensor nodes, effects of terrain, data-fusion algorithms, and threat characteristics. STAMiNA is built upon a commercial network-simulator engine, with extensions to include both sensing and communication models in a discrete-event simulation environment. Users can define (1) a mission environment, including terrain features; (2) objects to be sensed; (3) placements and modalities of sensors, abilities of sensors to sense objects of various types, and sensor false alarm rates; (4) trajectories of threatening objects; (5) means of dissemination and fusion of data; and (6) various network configurations. By use of STAMiNA, one can simulate detection of targets through sensing, dissemination of information by various wireless communication subsystems under various scenarios, and fusion of information, incorporating such metrics as target-detection probabilities, false-alarm rates, and communication loads, and capturing effects of terrain and threat.

Jennings, Esther↗

NASA NTRS2019

Evaluation of NASA's High-Resolution Global Composition Simulations: Understanding a Pollution Event in the Chesapeake Bay During the Summer 2017 OWLETS Campaign

Recirculation of pollutants due to a bay breeze effect is a key meteorological mechanism impacting air quality near urban coastal areas, but regional and global chemical transport models have historically struggled to capture this phenomenon. We present a case study of a high ozone (O3) episode observed over the Chesapeake Bay during the NASA Ozone Water-Land Environmental Transition Study (OWLETS) in summer 2017. OWLETS included a complementary suite of ground-based and airborne observations, with which we characterize the meteorological and chemical context of this event and develop a framework to evaluate model performance. Two publicly-available NASA global high-resolution coupled chemistry-meteorology models (CCMMs) are investigated: GEOS-CF and MERRA2-GMI. The GEOS-CF R squared value for comparisons between the NASA Sherpa C-23 aircraft measurements to the GEOS-CF resulted in good agreement (R squared: 0.67) on July 19th and fair agreement (R squared: 0.55) for July 20th. Compared to surface observations, we find the GEOS-CF product with a 25 x 25 km squared grid box, at an hourly (R squared: 0.62 to 0.87) and 15-minute (R squared: 0.64 to 0.87) interval for six regional sites outperforms the hourly nominally 50 x 50 km squared gridded MERRA2-GMI (R squared: 0.53 to 0.76) for four of the six sites, suggesting it is better capable of simulating complex chemical and meteorological features associated with ozone transport within the Chesapeake Bay airshed. When the GEOS-CF product was compared to the TOLNet LiDAR observations at both NASA Langley Research Center (LaRC) and the Chesapeake Bay Bridge Tunnel (CBBT), the median differences at LaRC were -6 to 8% and at CBBT were ± 7% between 400 to 2000 m ASL. This indicates that, for this case study, the GEOS-CF is able to simulate surface level ozone diurnal cycles and vertical ozone profiles at small scales between the surface level and 2000 m ASL. Evaluating global chemical model simulations at sub-regional scales will help air quality scientists understand the complex processes occurring at small spatial and temporal scales within complex surface terrain changes, simulating nighttime chemistry and deposition, and the potential to use global chemical transport simulations in support of regional and sub-regional field campaigns.

NASA Ozone Water-Land Environmental Transition Stu↗

NASA NTRS2000

Ordering Unstructured Meshes for Sparse Matrix Computations on Leading Parallel Systems

The ability of computers to solve hitherto intractable problems and simulate complex processes using mathematical models makes them an indispensable part of modern science and engineering. Computer simulations of large-scale realistic applications usually require solving a set of non-linear partial differential equations (PDES) over a finite region. For example, one thrust area in the DOE Grand Challenge projects is to design future accelerators such as the SpaHation Neutron Source (SNS). Our colleagues at SLAC need to model complex RFQ cavities with large aspect ratios. Unstructured grids are currently used to resolve the small features in a large computational domain; dynamic mesh adaptation will be added in the future for additional efficiency. The PDEs for electromagnetics are discretized by the FEM method, which leads to a generalized eigenvalue problem Kx = AMx, where K and M are the stiffness and mass matrices, and are very sparse. In a typical cavity model, the number of degrees of freedom is about one million. For such large eigenproblems, direct solution techniques quickly reach the memory limits. Instead, the most widely-used methods are Krylov subspace methods, such as Lanczos or Jacobi-Davidson. In all the Krylov-based algorithms, sparse matrix-vector multiplication (SPMV) must be performed repeatedly. Therefore, the efficiency of SPMV usually determines the eigensolver speed. SPMV is also one of the most heavily used kernels in large-scale numerical simulations.

Oliker, Leonid↗

NASA NTRS1988

Navier-Stokes simulation of 3-D hypersonic equilibrium air flow

A computationally efficient three-dimensional conservative supracharacteristic Navier-Stokes method has been extended to simulate complex external chemically reacting flows of hypersonic reentry vehicles at angle-of-attack. Numerical simulation results of the flow around a sphere-cone-cone-flare reentry vehicle at 10 deg angle-of-attack are presented, in addition to the results of a well-validated two-dimensional code with which the 0-deg axisymmetric flow has been computed. A method for obtaining compositions of species in equilibrium ionized air is proposed.

Nagaraj, N.↗

NASA NTRS1995

Accelerated Test Methods

Neural network systems were evaluated for use in predicting wear of mechanical systems. Three different neural network software simulation packages were utilized in order to create models of tribological wear tests. Representative simple, medium, and high complexity simulation packages were selected. Pin-on-disk, rub shoe, and four-ball tribological test data was used for training, testing, and verification of the neural network models. Results showed mixed success. The neural networks were able to predict results with some accuracy if the number of input variables was low or the amount of training data was high. Increased neural network complexity resulted in more accurate results, however there was a point of diminishing return. Medium complexity models were the best trade off between accuracy and computing time requirements. A NASA Technical Memorandum and a Society of Tribologists and Lubrication Engineers paper are being published which detail the work.

Jansen, Ralph↗

NASA NTRS1963

Man-machine system simulation for flight vehicles.

Man-machine system simulation for flight vehicles, discussing simulator complexity, realism and interrelation of feedback sensing cues

CONTROL↗

NASA NTRS2010

Assessment of Hybrid RANS/LES Turbulence Models for Aeroacoustics Applications

Predicting the noise from aircraft with exposed landing gear remains a challenging problem for the aeroacoustics community. Although computational fluid dynamics (CFD) has shown promise as a technique that could produce high-fidelity flow solutions, generating grids that can resolve the pertinent physics around complex configurations can be very challenging. Structured grids are often impractical for such configurations. Unstructured grids offer a path forward for simulating complex configurations. However, few unstructured grid codes have been thoroughly tested for unsteady flow problems in the manner needed for aeroacoustic prediction. A widely used unstructured grid code, FUN3D, is examined for resolving the near field in unsteady flow problems. Although the ultimate goal is to compute the flow around complex geometries such as the landing gear, simpler problems that include some of the relevant physics, and are easily amenable to the structured grid approaches are used for testing the unstructured grid approach. The test cases chosen for this study correspond to the experimental work on single and tandem cylinders conducted in the Basic Aerodynamic Research Tunnel (BART) and the Quiet Flow Facility (QFF) at NASA Langley Research Center. These configurations offer an excellent opportunity to assess the performance of hybrid RANS/LES turbulence models that transition from RANS in unresolved regions near solid bodies to LES in the outer flow field. Several of these models have been implemented and tested in both structured and unstructured grid codes to evaluate their dependence on the solver and mesh type. Comparison of FUN3D solutions with experimental data and numerical solutions from a structured grid flow solver are found to be encouraging.

Vatsa, Veer N.↗

NASA NTRS2002

Global Positioning System Simulator Field Operational Procedures

Global Positioning System (GPS) simulation is an important activity in the development or qualification of GPS signal receivers for space flight. Because a GPS simulator is a critical resource it is highly desirable to develop a set of field operational procedures to supplement the basic procedures provided by most simulator vendors. Validated field procedures allow better utilization of the GPS simulator in the development of new test scenarios and simulation operations. These procedures expedite simulation scenario development while resulting in scenarios that are more representative of the true design, as well as enabling construction of more complex simulations than previously possible, for example, spacecraft maneuvers. One difficulty in the development of a simulation scenario is specifying various modes of test vehicle motion and associated maneuvers requiring that a user specify some (but not all) of a few closely related simulation parameters. Currently this can only be done by trial and error. A stand-alone procedure that implements the simulator maneuver motion equations and solves for the motion profile transient times, jerk and acceleration would be of considerable value. Another procedure would permit the specification of some configuration parameters that would determine the simulated GPS signal composition. The resulting signal navigation message, for example, would force the receiver under test to use only the intended C-code component of the simulated GPS signal. A representative class of GPS simulation-related field operational procedures is described in this paper. These procedures were developed and used in support of GPS integration and testing for many successful spacecraft missions such as SAC-A, EO-1, AMSAT, VCL, SeaStar, sounding rockets, and by using the industry standard Spirent Global Simulation Systems Incorporated (GSSI) STR series simulators.

Kizhner, Semion↗

NASA NTRSDate not supplied

Large-Scale Simulation of a Distributed Sensing Network Supporting Regional Urban Air Mobility Operations

Urban Air Mobility (UAM) is set to transform transportation in densely populated regions like the San Francisco Bay Area. This paper introduces an innovative simulation approach to explore large-scale UAM scenarios, emphasizing the use of distributed sensing to enhance operational efficiency and safety. The Revolutionary Vertical Lift Technology (RVLT) model is employed as the framework for simulating complex interactions among multiple vehicles within urban landscapes. Strategically deployed ground sensor nodes enable distributed sensing, enhancing situational awareness and operational effectiveness. By integrating empirical data and geographical realism, the simulations provide a systematic analysis of the feasibility, efficiency, and safety considerations associated with UAM deployment in urban environments. Factors such as air traffic density and infrastructural requirements are thoroughly examined, offering actionable insights for policymakers and industry stakeholders. This paper aims to refine the structure and scenarios for large-scale simulations based on distributed sensing, thereby contributing to the advancement of UAM operations.

UAM↗

NASA NTRSDate not supplied

Large-Scale Simulation of a Distributed Sensing Network Supporting Regional Urban Air Mobility Operations

Aircraft Mobility↗