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At least 235 records · Page 13

Combining computational modeling and experimental library screening to affinity-mature VEEV-neutralizing antibody F5

Engineered monoclonal antibodies have proven to be highly effective therapeutics in recent viral outbreaks. However, despite technical advancements, an ability to rapidly adapt or increase antibody affinity and by extension, therapeutic efficacy, has yet to be fully realized. We endeavored to stand-up such a pipeline using molecular modeling combined with experimental library screening to increase the affinity of F5, a monoclonal antibody with potent neutralizing activity against Venezuelan Equine Encephalitis Virus (VEEV), to recombinant VEEV (IAB) E1E2 antigen. We modeled the F5/E1E2 binding interface and generated predictions for mutations to improve binding using a Rosetta-based approach and dTERMen, an informatics approach. The modeling was complicated by the fact that a high-resolution structure of F5 is not available and the H3 loop of F5 exceeds the length for which current modeling approaches can determine a unique structure. A subset of the predicted mutations from both methods were incorporated into a phage display library of scFvs. This library and a library generated by error-prone PCR were screened for binding affinity to the recombinant antigen. Results from the screens identified favorable mutations which were incorporated into 12 human-IgG1 variants. The best variant, containing eight mutations, improved KD from 0.63 nM (parental) to 0.01 nM. While this did not improve neutralization or therapeutic potency of F5 against IAB, it did increase cross-reactivity to other closely related VEEV epizootic and enzootic strains, demonstrating the potential of this method to rapidly adapt existing therapeutics to emerging viral strains.

affinity-maturation

COSIM: A Finite-Difference Computer Model to Predict Ternary Concentration Profiles Associated With Oxidation and Interdiffusion of Overlay-Coated Substrates

A finite-difference computer program (COSIM) has been written which models the one-dimensional, diffusional transport associated with high-temperature oxidation and interdiffusion of overlay-coated substrates. The program predicts concentration profiles for up to three elements in the coating and substrate after various oxidation exposures. Surface recession due to solute loss is also predicted. Ternary cross terms and concentration-dependent diffusion coefficients are taken into account. The program also incorporates a previously-developed oxide growth and spalling model to simulate either isothermal or cyclic oxidation exposures. In addition to predicting concentration profiles after various oxidation exposures, the program can also be used to predict coating life based on a concentration dependent failure criterion (e.g., surface solute content drops to 2%). The computer code is written in FORTRAN and employs numerous subroutines to make the program flexible and easily modifiable to other coating oxidation problems.

Nesbitt, James A.

COSIM: A Finite-Difference Computer Model to Predict Ternary Concentration Profiles Associated with Oxidation and Interdiffusion of Overlay-Coated Substrates

A finite-difference computer program (COSIM) has been written which models the one-dimensional, diffusional transport associated with high-temperature oxidation and interdiffusion of overlay-coated substrates. The program predicts concentration profiles for up to three elements in the coating and substrate after various oxidation exposures. Surface recession due to solute loss is also predicted. Ternary cross terms and concentration-dependent diffusion coefficients are taken into account. The program also incorporates a previously-developed oxide growth and spalling model to simulate either isothermal or cyclic oxidation exposures. In addition to predicting concentration profiles after various oxidation exposures, the program can also be used to predict coating fife based on a concentration dependent failure criterion (e.g., surface solute content drops to two percent). The computer code, written in an extension of FORTRAN 77, employs numerous subroutines to make the program flexible and easily modifiable to other coating oxidation problems.

Nesbitt, James A.

Utility of an emulation and simulation computer model for air revitalization system hardware design, development, and test

Efforts to make increasingly use of suitable computer programs in the design of hardware have the potential to reduce expenditures. In this context, NASA has evaluated the benefits provided by software tools through an application to the Environmental Control and Life Support (ECLS) system. The present paper is concerned with the benefits obtained by an employment of simulation tools in the case of the Air Revitalization System (ARS) of a Space Station life support system. Attention is given to the ARS functions and components, a computer program overview, a SAND (solid amine water desorbed) bed model description, a model validation, and details regarding the simulation benefits.

Yanosy, J. L.

Computational Modeling For The Transitional Flow Over A Multi-Element Airfoil

The transitional flow over a multi-element airfoil in a landing configuration are computed using a two equation transition model. The transition model is predictive in the sense that the transition onset is a result of the calculation and no prior knowledge of the transition location is required. The computations were performed using the INS2D) Navier-Stokes code. Overset grids are used for the three-element airfoil. The airfoil operating conditions are varied for a range of angle of attack and for two different Reynolds numbers of 5 million and 9 million. The computed results are compared with experimental data for the surface pressure, skin friction, transition onset location, and velocity magnitude. In general, the comparison shows a good agreement with the experimental data.

Liou, William W.

Atomistic Method Applied to Computational Modeling of Surface Alloys

The formation of surface alloys is a growing research field that, in terms of the surface structure of multicomponent systems, defines the frontier both for experimental and theoretical techniques. Because of the impact that the formation of surface alloys has on surface properties, researchers need reliable methods to predict new surface alloys and to help interpret unknown structures. The structure of surface alloys and when, and even if, they form are largely unpredictable from the known properties of the participating elements. No unified theory or model to date can infer surface alloy structures from the constituents properties or their bulk alloy characteristics. In spite of these severe limitations, a growing catalogue of such systems has been developed during the last decade, and only recently are global theories being advanced to fully understand the phenomenon. None of the methods used in other areas of surface science can properly model even the already known cases. Aware of these limitations, the Computational Materials Group at the NASA Glenn Research Center at Lewis Field has developed a useful, computationally economical, and physically sound methodology to enable the systematic study of surface alloy formation in metals. This tool has been tested successfully on several known systems for which hard experimental evidence exists and has been used to predict ternary surface alloy formation (results to be published: Garces, J.E.; Bozzolo, G.; and Mosca, H.: Atomistic Modeling of Pd/Cu(100) Surface Alloy Formation. Surf. Sci., 2000 (in press); Mosca, H.; Garces J.E.; and Bozzolo, G.: Surface Ternary Alloys of (Cu,Au)/Ni(110). (Accepted for publication in Surf. Sci., 2000.); and Garces, J.E.; Bozzolo, G.; Mosca, H.; and Abel, P.: A New Approach for Atomistic Modeling of Pd/Cu(110) Surface Alloy Formation. (Submitted to Appl. Surf. Sci.)). Ternary alloy formation is a field yet to be fully explored experimentally. The computational tool, which is based on the BFS (Bozzolo, Ferrante, and Smith) method for the calculation of the energetics, consists of a small number of simple PCbased computer codes that deal with the different aspects of surface alloy formation. Two analysis modes are available within this package. The first mode provides an atom-by-atom description of real and virtual stages 1. during the process of surface alloying, based on the construction of catalogues of configurations where each configuration describes one possible atomic distribution. BFS analysis of this catalogue provides information on accessible states, possible ordering patterns, and details of island formation or film growth. More importantly, it provides insight into the evolution of the system. Software developed by the Computational Materials Group allows for the study of an arbitrary number of elements forming surface alloys, including an arbitrary number of surface atomic layers. The second mode involves large-scale temperature-dependent computer 2. simulations that use the BFS method for the energetics and provide information on the dynamic processes during surface alloying. These simulations require the implementation of Monte-Carlo-based codes with high efficiency within current workstation environments. This methodology capitalizes on the advantages of the BFS method: there are no restrictions on the number or type of elements or on the type of crystallographic structure considered. This removes any restrictions in the definition of the configuration catalogues used in the analytical calculations, thus allowing for the study of arbitrary ordering patterns, ultimately leading to the actual surface alloy structure. Moreover, the Monte Carlo numerical technique used for the large-scale simulations allows for a detailed visualization of the simulated process, the main advantage of this type of analysis being the ability to understand the underlying features that drive these processes. Because of the simplicity of the BFS method for e energetics used in these calculations, a detailed atom-by-atom analysis can be performed at any point in the simulation, providing necessary insight on the details of the process. The main objective of this research program is to develop a tool to guide experimenters in understanding and interpreting often unexpected results in alloy formation experiments. By reducing the computational effort without losing physical accuracy, we expect that powerful simulation tools will be developed in the immediate future, which will allow material scientists to easily visualize and analyze processes at a level not achievable experimentally.

Bozzolo, Guillermo H.

Computational models of human vision with applications

Perceptual problems in aeronautics were studied. The mechanism by which color constancy is achieved in human vision was examined. A computable algorithm was developed to model the arrangement of retinal cones in spatial vision. The spatial frequency spectra are similar to the spectra of actual cone mosaics. The Hartley transform as a tool of image processing was evaluated and it is suggested that it could be used in signal processing applications, GR image processing.

Wandell, B. A.

Computational Modeling of the Ames 11-Ft Transonic Wind Tunnel in Conjunction with IofNEWT

Technical advances in Computational Fluid Dynamics have now made it possible to simulate complex three-dimensional internal flows about models of various size placed in a Transonic Wind Tunnel. TWT wall interference effects have been a source of error in predicting flight data from actual wind tunnel measured data. An advantage of such internal CFD calculations is to directly compare numerical results with the actual tunnel data for code assessment and tunnel flow analysis. A CFD capability has recently been devised for flow analysis of the NASA/Ames 11-Ft TWT facility. The primary objectives of this work are to provide a CFD tool to study the NASA/Ames 11-Ft TWT flow characteristics, to understand the slotted wall interference effects, and to validate CFD codes. A secondary objective is to integrate the internal flowfield calculations with the Pressure Sensitive Paint data, a surface pressure distribution capability in Ames' production wind tunnels. The effort has been part of the Ames IofNEWT, Integration of Numerical and Experimental Wind Tunnels project, which is aimed at providing further analytical tools for industrial application. We used the NASA/Ames OVERFLOW code to solve the thin-layer Navier-Stokes equations. Viscosity effects near the model are captured by Baldwin-Lomax or Baldwin-Barth turbulence models. The solver was modified to model the flow behavior in the vicinity of the tunnel longitudinal slotted walls. A suitable porous type wall boundary condition was coded to account for the cross-flow through the test section. Viscous flow equations were solved in generalized coordinates with a three-factor implicit central difference scheme in conjunction with the Chimera grid procedure. The internal flow field about the model and the tunnel walls were descretized by the Chimera overset grid system. This approach allows the application of efficient grid generation codes about individual components of the configuration; separate minor grids were developed to resolve the model and overset onto a main grid which discretizes the interior of the tunnel test section. Individual grid components axe not required to have mesh boundaries joined in any special way to each other or to the main tunnel grid. Programs have been developed to rotate the model about the tunnel pivot point and rotation axis, similar to that of the tunnel turntable mechanism for adjusting the pitch of the physical model in the test section.

Djomehri, M. Jahed

Computer modeling for a space power transmission system

The paper summarizes the development of a computer program that simulates the performance of a large phased array antenna composed of 7220 smaller subarrays, each made up of klystron modules which act as individual radiators. The purpose of this program is to: (1) study the far-field pattern near the rectenna, (2) calculate the beam efficiency, and (3) observe the grating lobe behavior. Attention is given to the computer program which consists of a main program and four subroutines, as well as to the system configurations. The effects of amplitude, phase and random subarray failures are examined and an error budget was specified for 10 to the 0 phase error, + or - 1 dB amplitude error, and a 2% random failure rate.

Rathjen, S. M.

Computer modeling of current collection by the CHARGE-2 mother payload

The three-dimensional computer codes NASCAP/LEO and POLAR have been used to calculate current collection by the mother payload of the CHARGE-2 rocket under conditions of positive and negative potential up to several hundred volts. For negative bias (ion collection), the calculations lie about 25 percent above the data, indicating that the ions were less dense, colder, or heavier than the input parameters. For positive bias (electron collection), NASCAP/LEO and POLAR calculations show similar agreement with the measurements at the highest altitudes. This agreement indicates that the current is classically magnetically limited, even during electron beam emission. However, the calculated values fall well below the data at lower altitudes. It is suggested that beam-plasma-neutral interactions are responsible for the high values of collected current at altitudes below 240 km.

Mandell, M. J.

Program listing for the REEDM (Rocket Exhaust Effluent Diffusion Model) computer program

The program listing for the REEDM Computer Program is provided. A mathematical description of the atmospheric dispersion models, cloud-rise models, and other formulas used in the REEDM model; vehicle and source parameters, other pertinent physical properties of the rocket exhaust cloud and meteorological layering techniques; user's instructions for the REEDM computer program; and worked example problems are contained in NASA CR-3646.

Bjorklund, J. R.

Computer modeling of high-efficiency solar cells

Transport equations which describe the flow of holes and electrons in the heavily doped regions of a solar cell are presented in a form that is suitable for device modeling. Two experimentally determinable parameters, the effective bandgap shrinkage and the effective asymmetry factor are required to completely model the cell in these regions. Nevertheless, a knowledge of only the effective bandgap shrinkage is sufficient to model the terminal characteristics of the cell. The results of computer simulations of the effects of heavy doping are presented. The insensitivity of the terminal characteristics to the choice of effective asymmetry factor is shown along with the sensitivity of the electric field and quasielectric fields to this parameter. The dependence of the terminal characteristics on the effective bandgap shrinkage is also presented.

Schartz, R. J.

Progress in the development of advanced computational models for the analysis of generalized supersonic jet flowfields

This paper describes two three-dimensional computational codes (PARCH and CRAFT) for computing a generalized supersonic jet flowfields with subsonic external streams, which solve the Reynolds-averaged Navier-Stokes equations in a time asymptotic manner. The application of these codes to an imperfectly expanded jet flowfield is demonstrated. Special attention is given to numerical issues and to turbulence modeling. The application of the PARCH and CRAFT codes to other related flowfield problems, such as gas turbine and nozzle flows, and to generalized missile-plume flowfields is discussed.

Dash, S. M.

Conceptual designs and computer models of imaging radiometers for earth observations

An analytical model is developed based on engineering principles which can be used to predict the performance of spaceborne electro-optical remote sensors. Computer simulations and trade-off studies can be performed with this model to determine optimal sensor performance and design parameters. Computer algorithms were developed from which LOTUS spreadsheet macros were written. Computer simulations were performed to determine the performance characteristics and design parameters for the Moderate Resolution Imaging Spectrometer Nadir (MODIS-N) currently under development at NASA/Goddard Space Flight Center.

Montgomery, Harry E.

Computational Modeling of Mars Retropropulsion Concepts in the Langley Unitary Plan Wind Tunnel

Future human Mars missions will require powered descent starting at supersonic conditions, something which has never been done before at Mars. Computational powered descent flowfield simulations have been completed at full-scale Mars conditions, but the available ground test data are not appropriate for calibrating computational uncertainties for aerodynamic interference on proposed Mars descent vehicles. A test will be conducted in the NASA Langley Unitary Plan Wind Tunnel to begin addressing powered descent aerodynamics risks for large-scale human Mars entry concepts and to identify gaps in computational predictive capabilities. This paper covers pre-test computational flowfield predictions of two different models derived from full-scale reference vehicles: a blunt low lift-to-drag vehicle and a more slender geometry. Calculations of the blunt model include variations in nozzle configuration: nozzle location, size, area ratio, and pointing direction. There exist some significant differences between solvers, but some general trends are observed from simulations of the blunt model. First, aerodynamic axial force from the heatshield decreases with increasing thrust due to expanding plume blockage. Second, nozzles that point along the model axis result in lower aerodynamic axial force compared to nozzles that have a radial thrust component. Finally, placing the nozzles further away from the model nose preserves more heatshield axial force with increasing thrust com- pared to nozzles that are closer to the nose. For the slender model, the axial force from the heatshield is similar to the non-blowing axial force regardless of thrust magnitude, due to the nozzle arrangement on the heatshield. Once the test is completed, direct comparisons between the computations and test data will be made to determine computational uncertainties in a wind tunnel environment, to identify gaps in predictive capabilities, and to inform planning for future ground and flight test programs for Mars powered descent vehicles.

Mars

Computational Modeling of Mars Retropropulsion Concepts in the Langley Unitary Plan Wind Tunnel

Future human Mars missions will require powered descent starting at supersonic conditions, something which has never been done before at Mars. Computational powered descent flowfield simulations have been completed at full-scale Mars conditions, but the available ground test data are not appropriate for calibrating computational uncertainties for aerodynamic interference on proposed Mars descent vehicles. A test will be conducted in the NASA Langley Unitary Plan Wind Tunnel to begin addressing powered descent aerodynamics risks for large-scale human Mars entry concepts and to identify gaps in computational predictive capabilities. This paper covers pre-test computational flowfield predictions of two different models derived from full-scale reference vehicles: a blunt low lift-to-drag vehicle and a more slender geometry. Calculations of the blunt model include variations in nozzle configuration: nozzle location, size, area ratio, and pointing direction. There exist some significant differences between solvers, but some general trends are observed from simulations of the blunt model. First, aerodynamic axial force from the heatshield decreases with increasing thrust due to expanding plume blockage. Second, nozzles that point along the model axis result in lower aerodynamic axial force compared to nozzles that have a radial thrust component. Finally, placing the nozzles further away from the model nose preserves more heatshield axial force with increasing thrust compared to nozzles that are closer to the nose. For the slender model, the axial force from the heatshield is similar to the non-blowing axial force regardless of thrust magnitude, due to the nozzle arrangement on the heatshield. Once the test is completed, direct comparisons between the computations and test data will be made to determine computational uncertainties in a wind tunnel environment, to identify gaps in predictive capabilities, and to inform planning for future ground and flight test programs for Mars powered descent vehicles.

Supersonic Retropropulsion

Ablative Rocket Deflector Testing and Computational Modeling

A deflector risk mitigation program was recently conducted at the NASA Stennis Space Center. The primary objective was to develop a database that characterizes the behavior of industry-grade refractory materials subjected to rocket plume impingement conditions commonly experienced on static test stands. The program consisted of short and long duration engine tests where the supersonic exhaust flow from the engine impinged on an ablative panel. Quasi time-dependent erosion depths and patterns generated by the plume impingement were recorded for a variety of different ablative materials. The erosion behavior was found to be highly dependent on the material s composition and corresponding thermal properties. For example, in the case of the HP CAST 93Z ablative material, the erosion rate actually decreased under continued thermal heating conditions due to the formation of a low thermal conductivity "crystallization" layer. The "crystallization" layer produced near the surface of the material provided an effective insulation from the hot rocket exhaust plume. To gain further insight into the complex interaction of the plume with the ablative deflector, computational fluid dynamic modeling was performed in parallel to the ablative panel testing. The results from the current study demonstrated that locally high heating occurred due to shock reflections. These localized regions of shock-induced heat flux resulted in non-uniform erosion of the ablative panels. In turn, it was observed that the non-uniform erosion exacerbated the localized shock heating causing eventual plume separation and reversed flow for long duration tests under certain conditions. Overall, the flow simulations compared very well with the available experimental data obtained during this project.

Allgood, Daniel C.