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At least 865 records · Page 48

Artificial Intelligence Transforming Post-Translational Modification Research

Post-Translational Modifications (PTMs) are covalent changes to amino acids that occur after protein synthesis, including covalent modifications on side chains and peptide backbones. Many PTMs profoundly impact cellular and molecular functions and structures, and their significance extends to evolutionary studies as well. In light of these implications, we have explored how artificial intelligence (AI) can be utilized in researching PTMs. Initially, rationales for adopting AI and its advantages in understanding the functions of PTMs are discussed. Then, various deep learning architectures and programs, including recent applications of language models, for predicting PTM sites on proteins and the regulatory functions of these PTMs are compared. Finally, our high-throughput PTM-data-generation pipeline, which formats data suitably for AI training and predictions is described. We hope this review illuminates areas where future AI models on PTMs can be improved, thereby contributing to the field of PTM bioengineering.

59 BASIC BIOLOGICAL SCIENCES↗

A technique for correcting ERTS data for solar and atmospheric effects

A technique is described by which ERTS investigators can obtain and utilize solar and atmospheric parameters to transform spacecraft radiance measurements to absolute target reflectance signatures. A radiant power measuring instrument (RPMI) and its use in determining atmospheric paramaters needed for ground truth are discussed. The procedures used and results achieved in processing ERTS CCTs to correct for atmospheric parameters to obtain imagery are reviewed. Examples are given which demonstrate the nature and magnitude of atmospheric effects on computer classification programs.

Rogers, R. H.↗

Finite element solution algorithm for incompressible fluid dynamics

A finite element solution algorithm is established for the two-dimensional Navier-Stokes equations governing the transient motion of a viscous incompressible fluid, i.e., hydrodynamics. Dependent variable transformation renders the differential equation description uniformly elliptic. The finite element algorithm is established using the Galerkin criterion on a local basis within the Method of Weighted Residuals. It is unconstrained with respect to system linearity, computational mesh uniformity or solution domain closure regularity. The finite element matrices are established using a linear 'natural coordinate function' description. Computational solutions using the COMOC computer program illustrate the various features of the algorithm including recirculating flows.

Baker, A. J.↗

A Field Portable Hyperspectral Goniometer for Coastal Characterization

During an airborne multi-sensor remote sensing experiment at the Virginia Coast Reserve (VCR) Long Term Ecological Research (LTER) site in June 2011 (VCR '11), first measurements were taken with the new NRL Goniometer for Outdoor Portable Hyperspectral Earth Reflectance (GOPHER). GOPHER measures the angular distribution of hyperspectral reflectance. GOPHER was constructed for NRL by Spectra Vista Corporation (SVC) and the University of Lethbridge through a capital equipment purchase in 2010. The GOPHER spectrometer is an SVC HR -1024, which measures hyperspectral reflectance over the range from 350 -2500 nm, the visible, near infrared, and short-wave infrared. During measurements, the spectrometer travels along a zenith quarter -arc track that can rotate in azimuth, allowing for measurement of the bi-directional reflectance distribution function (BRDF) over the whole hemisphere. The zenith arc has a radius of approximately 2m, and the spectrometer scan pattern can be programmed on the fly during calibration and validation efforts. The spectrometer and zenith arc assembly can be raised and lowered along a mast to allow for measurement of uneven terrain or vegetation canopies of moderate height. Hydraulics on the chassis allow for leveling of the instrument in the field. At just over 400 lbs, GOPHER is a field portable instrument and can be transformed into a compact trailer assembly for movement over long distances in the field.

Bachmann, Charles M.↗

SMD Technology Highlights

Three technology highlights from the Science Mission Directorate (SMD) Astrophysics Division, Biological and Physical Sciences Division, and Planetary Science Division are featured: a) A new class of X-ray detector with unprecedented energy resolution and array size could help transform our understanding of the cosmos through unparalleled vision into the otherwise invisible universe. b) An autonomous microfluidic culturing system with CubeSat heritage is teaming up with two state-of-the-art radiation detectors to measure how biology responds to the radiation and reduced gravity environment on the lunar surface. c) Several core technologies developed via the Hot Operating Temperature Technology (HOTTech) Program were recently tested in the Glenn Extreme Environment Rig (GEER), which simulates the conditions on the surface of Venus.

yeast↗

Dynamic measurements of gear tooth friction and load

As part of a program to study fundamental mechanisms of gear noise, static and dynamic gear tooth strain measurements were made on the NASA gear-noise rig. Tooth-fillet strains from low-contact ratio-spur gears were recorded for 28 operating conditions. A method is introduced whereby strain gage measurements taken from both the tension and compression sides of a gear tooth can be transformed into the normal and frictional loads on the tooth. This technique was applied to both the static and dynamic strain data. The static case results showed close agreement with expected results. For the dynamic case, the normal-force computation produced very good results, but the friction results, although promising, were not as accurate. Tooth sliding friction strongly affected the signal from the strain gage on the tensionside of the tooth. The compression gage was affected by friction to a much lesser degree. The potential of the method to measure friction force was demonstrated, but further refinement will be required before this technique can be used to measure friction forces dynamically with an acceptable degree of accuracy.

Rebbechi, Brian↗

The Advanced Solar Observatory

A conceptual plan for the development of a comprehensive long duration solar space observatory, The Advanced Solar Observatory (ASO) is described. The ASO is intended to provide solar astronomers with the observational power necessary to address fundamental problems relating to the solar convection zone and activity cycle; the thermal and nonthermal processes that control the transport of energy, mass, and magnetic flux in the solar atmosphere; the generation of the solar wind; and the dynamics of the inner heliosphere. The ASO concept encompasses three proposed Space Station-based instrument ensembles: (1) the High Resolution Telescope Cluster, which includes far ultraviolet, extreme ultraviolet, and X-ray telescopes; (2) the Pinhole/Occulter Facility, which includes Fourier transform and coded aperture hard X-ray and gamma ray telescopes and occulted ultraviolet and visible light coronagraphs; and (3) the High Energy Facility, which contains neutron, gamma ray, and low frequency radio spectrometers. Two other facilities, the Orbiting Solar Laboratory, and a package of Global Dynamics Instrumentation, will, with the Space Station ensembles, form a comprehensive capability for solar physics. The scientific program of the ASO, current instrument concepts for the Space Station based ASO instrument ensembles, and plans for their accommodation on the Space Station are described.

Walker, Arthur B. C., Jr.↗

Skin exposure: Assessing the hazard in the workplace

An outline of the Occupational Safety and Health Agency's concerns of skin exposure to hazardous chemicals is presented, followed by the corresponding slide narrations. Specifically, dermatitis and skin absorption as compared to lung absorption are addressed. Lung versus skin exposure is examined for glycol ethers and acrylamide. Examples of skin exposure include PBC's in transformers, toluene and xylene from autobody work, polynuclear aromatics (PNA's) among Coke oven workers, toluene diisocyanate (TDI), and occupational chemical exposures in an academic medical center. Permeation through gloves in the semiconductor industry is addressed as evidence for the need to assess the effectiveness of PPE (Personal Protective Equipment). This leads to the revisions of the PPE standard and the Safety and Health Program standard.

Cummins, Kevin↗

Performance seeking control excitation mode

Flight testing of the performance seeking control (PSC) excitation mode was successfully completed at NASA Dryden on the F-15 highly integrated digital electronic control (HIDEC) aircraft. Although the excitation mode was not one of the original objectives of the PSC program, it was rapidly prototyped and implemented into the architecture of the PSC algorithm, allowing valuable and timely research data to be gathered. The primary flight test objective was to investigate the feasibility of a future measurement-based performance optimization algorithm. This future algorithm, called AdAPT, which stands for adaptive aircraft performance technology, generates and applies excitation inputs to selected control effectors. Fourier transformations are used to convert measured response and control effector data into frequency domain models which are mapped into state space models using multiterm frequency matching. Formal optimization principles are applied to produce an integrated, performance optimal effector suite. The key technical challenge of the measurement-based approach is the identification of the gradient of the performance index to the selected control effector. This concern was addressed by the excitation mode flight test. The AdAPT feasibility study utilized the PSC excitation mode to apply separate sinusoidal excitation trims to the controls - one aircraft, inlet first ramp (cowl), and one engine, throat area. Aircraft control and response data were recorded using on-board instrumentation and analyzed post-flight. Sensor noise characteristics, axial acceleration performance gradients, and repeatability were determined. Results were compared to pilot comments to assess the ride quality. Flight test results indicate that performance gradients were identified at all flight conditions, sensor noise levels were acceptable at the frequencies of interest, and excitations were generally not sensed by the pilot.

Schkolnik, Gerard↗

Direct Imaging of Stellar Surfaces: Results from the Stellar Imager (SI) Vision Mission Study

The Stellar Imager (SI) is a UV-Optical, Space-Based Interferometer designed to enable 0.1 milli-arcsecond (mas) spectral imaging of stellar surfaces and stellar interiors (via asteroseismology) and of the Universe in general. SI is identified as a "Flagship and Landmark Discovery Mission'' in the 2005 Sun Solar System Connection (SSSC) Roadmap and as a candidate for a "Pathways to Life Observatory'' in the Exploration of the Universe Division (EUD) Roadmap (May, 2005). The ultra-sharp images of the Stellar Imager will revolutionize our view of many dynamic astrophysical processes: The 0.1 mas resolution of this deep-space telescope will transform point sources into extended sources, and snapshots into evolving views. SI's science focuses on the role of magnetism in the Universe, particularly on magnetic activity on the surfaces of stars like the Sun. SI's prime goal is to enable long-term forecasting of solar activity and the space weather that it drives in support of the Living With a Star program in the Exploration Era. SI will also revolutionize our understanding of the formation of planetary systems, of the habitability and climatology of distant planets, and of many magneto-hydrodynamically controlled processes in the Universe. In this paper we will discuss the results of the SI Vision Mission Study, elaborating on the science goals of the SI Mission and a mission architecture that could meet those goals.

Carpenter, Kenneth↗

Stellar Imager (SI) Space Mission: Stellar Magnetic Activity

The Stellar Imager (SI) is a UV-Optical, Space-Based interferometer designed to enable 0.1 milli-arcsecond (mas) spectral imaging of stellar surfaces and stellar interiors (via asteroseismology) and of the Universe in general. SI is identified as a "Flagship and Landmark Discovery Mission" in the 2005 Sun Solar System Connection (SSSC) Roadmap and as a candidate for a "Pathways to Life Observatory" in the Exploration of the Universe Division (EUD) Roadmap (May, 2005). The ultra-sharp images of the Stellar Imager will revolutionize our view of many dynamic astrophysical processes: The 0.1 mas resolution of this deep-space telescope will transform point sources into extended sources, and snapshots into evolving views. SI'S science focuses on the role of magnetism in the Universe, particularly on magnetic activity on the surfaces of stars like the Sun. SI'S prime goal is to enable long-term forecasting of solar activity and the space weather that it drives in support of the Living With a Star program in the Exploration Era. SI will also revolutionize our understanding of the formation of planetary systems, of the habitability and climatology of distant planets, and of many magneto-hydrodynamically controlled processes in the Universe. In this paper we will discuss the science goals of the SI Mission and a mission architecture that could meet those goals.

Carpenter, K. G.↗

Advanced Coating Removal Techniques

An important step in the repair and protection against corrosion damage is the safe removal of the oxidation and protective coatings without further damaging the integrity of the substrate. Two such methods that are proving to be safe and effective in this task are liquid nitrogen and laser removal operations. Laser technology used for the removal of protective coatings is currently being researched and implemented in various areas of the aerospace industry. Delivering thousands of focused energy pulses, the laser ablates the coating surface by heating and dissolving the material applied to the substrate. The metal substrate will reflect the laser and redirect the energy to any remaining protective coating, thus preventing any collateral damage the substrate may suffer throughout the process. Liquid nitrogen jets are comparable to blasting with an ultra high-pressure water jet but without the residual liquid that requires collection and removal .As the liquid nitrogen reaches the surface it is transformed into gaseous nitrogen and reenters the atmosphere without any contamination to surrounding hardware. These innovative technologies simplify corrosion repair by eliminating hazardous chemicals and repetitive manual labor from the coating removal process. One very significant advantage is the reduction of particulate contamination exposure to personnel. With the removal of coatings adjacent to sensitive flight hardware, a benefit of each technique for the space program is that no contamination such as beads, water, or sanding residue is left behind when the job is finished. One primary concern is the safe removal of coatings from thin aluminum honeycomb face sheet. NASA recently conducted thermal testing on liquid nitrogen systems and found that no damage occurred on 1/6", aluminum substrates. Wright Patterson Air Force Base in conjunction with Boeing and NASA is currently testing the laser remOval technique for process qualification. Other applications of liquid nitrogen operations include cutting of both soft and hard materials. While the laser will not cut materials, it can be used to roughen surfaces and to remove other materials from the substrate including oil, grease, and mold. The space program can benefit from several of these applications with the need for precise removal of coatings and other organic compounds in areas adjacent to sensitive space flight hardware. Significant advantages are evident when comparing liquid nitrogen and laser removal operations over current techniques of media blasting and sanding.

Seibert, Jon↗

Mars Aerial Regional-Scale Environmental Survey (ARES) Coordinate Systems Definitions and Transformations

The Aerial Regional-Scale Environmental Survey (ARES) is a Mars exploration mission concept with the goal of taking scientific measurements of the atmosphere, surface, and subsurface of Mars by using an airplane as the payload platform. ARES team first conducted a Phase-A study for a 2007 launch opportunity, which was completed in May 2003. Following this study, significant efforts were undertaken to reduce the risk of the atmospheric flight system, under the NASA Langley Planetary Airplane Risk Reduction Project. The concept was then proposed to the Mars Scout program in 2006 for a 2011 launch opportunity. This paper summarizes the design and development of the ARES airplane propulsion subsystem beginning with the inception of the ARES project in 2002 through the submittal of the Mars Scout proposal in July 2006.

Kuhl, Christoper A.↗

Understanding software faults and their role in software reliability modeling

This study is a direct result of an on-going project to model the reliability of a large real-time control avionics system. In previous modeling efforts with this system, hardware reliability models were applied in modeling the reliability behavior of this system. In an attempt to enhance the performance of the adapted reliability models, certain software attributes were introduced in these models to control for differences between programs and also sequential executions of the same program. As the basic nature of the software attributes that affect software reliability become better understood in the modeling process, this information begins to have important implications on the software development process. A significant problem arises when raw attribute measures are to be used in statistical models as predictors, for example, of measures of software quality. This is because many of the metrics are highly correlated. Consider the two attributes: lines of code, LOC, and number of program statements, Stmts. In this case, it is quite obvious that a program with a high value of LOC probably will also have a relatively high value of Stmts. In the case of low level languages, such as assembly language programs, there might be a one-to-one relationship between the statement count and the lines of code. When there is a complete absence of linear relationship among the metrics, they are said to be orthogonal or uncorrelated. Usually the lack of orthogonality is not serious enough to affect a statistical analysis. However, for the purposes of some statistical analysis such as multiple regression, the software metrics are so strongly interrelated that the regression results may be ambiguous and possibly even misleading. Typically, it is difficult to estimate the unique effects of individual software metrics in the regression equation. The estimated values of the coefficients are very sensitive to slight changes in the data and to the addition or deletion of variables in the regression equation. Since most of the existing metrics have common elements and are linear combinations of these common elements, it seems reasonable to investigate the structure of the underlying common factors or components that make up the raw metrics. The technique we have chosen to use to explore this structure is a procedure called principal components analysis. Principal components analysis is a decomposition technique that may be used to detect and analyze collinearity in software metrics. When confronted with a large number of metrics measuring a single construct, it may be desirable to represent the set by some smaller number of variables that convey all, or most, of the information in the original set. Principal components are linear transformations of a set of random variables that summarize the information contained in the variables. The transformations are chosen so that the first component accounts for the maximal amount of variation of the measures of any possible linear transform; the second component accounts for the maximal amount of residual variation; and so on. The principal components are constructed so that they represent transformed scores on dimensions that are orthogonal. Through the use of principal components analysis, it is possible to have a set of highly related software attributes mapped into a small number of uncorrelated attribute domains. This definitively solves the problem of multi-collinearity in subsequent regression analysis. There are many software metrics in the literature, but principal component analysis reveals that there are few distinct sources of variation, i.e. dimensions, in this set of metrics. It would appear perfectly reasonable to characterize the measurable attributes of a program with a simple function of a small number of orthogonal metrics each of which represents a distinct software attribute domain.

Munson, John C.↗

Removal of deuterium retained in boron powder by oxygen or high-temperature bakeout

Fuel retention in dust accumulated in fusion devices is a potential operational hazard. Boronization is one of the leading wall-conditioning candidates for future fusion devices. Fuel retention characteristics of boron dust must be studied to accurately understand the potential hazards of boron dust in fusion devices. We evaluated the retention of deuterium (D) in commercially available boron powder as a proxy for tritium retention in boron dust. Diffuse reflectance infrared Fourier transform spectroscopy revealed that boron powder between 300 and 500 K exposed to neutral hydrogen (H 2 ) gas retains H via B-H bonding. We utilized D 2 exposures of 17,400 L on the boron powder, which led to retention on the order of 0.5 g D per 100 kg B or 1.2 g D per m 2 B, as estimated from temperature programmed desorption measurements. We evaluated how powder bakeouts under ultra-high vacuum (UHV), or in an oxygen (O 2 ) or H 2 gas backfilled environment can remove the retained fuel. Bakeouts below 523 K under UHV exhibited poor D removal, promoting recapture of D 2 present as background gas in the chamber. Higher temperature bakeouts led to the removal of over 80% of the retained D within 3 days (623 K) or 1 h (723 K). Bakeouts at 423 K under an O 2 gas environment removed ∼150% more retained D from the boron powder, when compared to bakeouts conducted under UHV. These results suggest that efficient fuel removal from boron dust can be achieved by high-temperature bakeout (>623 K) or by bakeouts at lower temperature (423 K) under an O 2 environment.

Bakeout↗

Scalable Performance Environments for Parallel Systems

As parallel systems expand in size and complexity, the absence of performance tools for these parallel systems exacerbates the already difficult problems of application program and system software performance tuning. Moreover, given the pace of technological change, we can no longer afford to develop ad hoc, one-of-a-kind performance instrumentation software; we need scalable, portable performance analysis tools. We describe an environment prototype based on the lessons learned from two previous generations of performance data analysis software. Our environment prototype contains a set of performance data transformation modules that can be interconnected in user-specified ways. It is the responsibility of the environment infrastructure to hide details of module interconnection and data sharing. The environment is written in C++ with the graphical displays based on X windows and the Motif toolkit. It allows users to interconnect and configure modules graphically to form an acyclic, directed data analysis graph. Performance trace data are represented in a self-documenting stream format that includes internal definitions of data types, sizes, and names. The environment prototype supports the use of head-mounted displays and sonic data presentation in addition to the traditional use of visual techniques.

Reed, Daniel A.↗

The Different Wavelengths of Radio Science

Radio Science covers many different avenues. This summer I attempted to work in each of the different avenues to learn the full range of subjects covered by Radio Science. I began my summer by traveling to Greece for the 3rd International Planetary Probe Workshop (IPPW-3). I went as a co-author of the Doppler Wind Experiment (DWE) team paper. My first job when I returned from Greece was to update the Radio Science activities webpage. I then used Fast Fourier Transforms (FFT) to find radio signals in recorded Radio Science experimental data and determine frequencies and powers. I read about and ran Fortran code being used to determine wind measurements on Huygens. I formatted and revised the abstracts and data lengths for the DVD data sets. By performing these tasks, I also learned the Unix operating system as well as a small amount of shell programming.

Malecha, Jessica L.↗

Accelerated Adaptive MGS Phase Retrieval

The Modified Gerchberg-Saxton (MGS) algorithm is an image-based wavefront-sensing method that can turn any science instrument focal plane into a wavefront sensor. MGS characterizes optical systems by estimating the wavefront errors in the exit pupil using only intensity images of a star or other point source of light. This innovative implementation of MGS significantly accelerates the MGS phase retrieval algorithm by using stream-processing hardware on conventional graphics cards. Stream processing is a relatively new, yet powerful, paradigm to allow parallel processing of certain applications that apply single instructions to multiple data (SIMD). These stream processors are designed specifically to support large-scale parallel computing on a single graphics chip. Computationally intensive algorithms, such as the Fast Fourier Transform (FFT), are particularly well suited for this computing environment. This high-speed version of MGS exploits commercially available hardware to accomplish the same objective in a fraction of the original time. The exploit involves performing matrix calculations in nVidia graphic cards. The graphical processor unit (GPU) is hardware that is specialized for computationally intensive, highly parallel computation. From the software perspective, a parallel programming model is used, called CUDA, to transparently scale multicore parallelism in hardware. This technology gives computationally intensive applications access to the processing power of the nVidia GPUs through a C/C++ programming interface. The AAMGS (Accelerated Adaptive MGS) software takes advantage of these advanced technologies, to accelerate the optical phase error characterization. With a single PC that contains four nVidia GTX-280 graphic cards, the new implementation can process four images simultaneously to produce a JWST (James Webb Space Telescope) wavefront measurement 60 times faster than the previous code.

Lam, Raymond K.↗