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At least 1,423 records · Page 79

Metabolic model-based ecological modeling for probiotic design

The microbial community composition in the human gut has a profound effect on human health. This observation has lead to extensive use of microbiome therapies, including over-the-counter ‘probiotic’ treatments intended to alter the composition of the microbiome. Despite so much promise and commercial interest, the factors that contribute to the success or failure of microbiome-targeted treatments remain unclear. We investigate the biotic interactions that lead to successful engraftment of a novel bacterial strain introduced to the microbiome as in probiotic treatments. We use pairwise genome-scale metabolic modeling with a generalized resource allocation constraint to build a network of interactions between taxa that appear in an experimental engraftment study. We create induced sub-graphs using the taxa present in individual samples and assess the likelihood of invader engraftment based on network structure. To do so, we use a generalized Lotka-Volterra model, which we show has strong ability to predict if a particular invader or probiotic will successfully engraft into an individual’s microbiome. Furthermore, we show that the mechanistic nature of the model is useful for revealing which microbe-microbe interactions potentially drive engraftment.

59 BASIC BIOLOGICAL SCIENCES↗

Program for computer aided reliability estimation

A computer program for estimating the reliability of self-repair and fault-tolerant systems with respect to selected system and mission parameters is presented. The computer program is capable of operation in an interactive conversational mode as well as in a batch mode and is characterized by maintenance of several general equations representative of basic redundancy schemes in an equation repository. Selected reliability functions applicable to any mathematical model formulated with the general equations, used singly or in combination with each other, are separately stored. One or more system and/or mission parameters may be designated as a variable. Data in the form of values for selected reliability functions is generated in a tabular or graphic format for each formulated model.

Mathur, F. P.↗

Interactive aircraft flight control and aeroelastic stabilization

Several examples are presented in which flutter involving interaction between flight mechanics modes and elastic wind bending occurs for a forward swept wing flight vehicle. These results show the basic mechanism by which the instability occurs and form the basis for attempts to actively control such a vehicle.

Weisshaar, T. A.↗

Magnetospheres of Jupiter and Saturn

During the time from 1973 to 1981, the giant planets, Jupiter and Saturn, have been studied with the aid of the spacecraft Pioneers 10, 11, and Voyagers 1 and 2. The present investigation is concerned with the study of the magnetospheres of these planets, taking into account the immediate region of their environment in which the planetary magnetic field is the dominant physical force, and the boundary of the magnetospheres which is formed by the interaction with the solar wind. Attention is given to the recent results obtained by the Voyagers. It is found that the basic features of the magnetospheres of Jupiter and Saturn are similar to those of the earth. There are, however, also differences with the earth which relate to the large amount of entrapped low energy plasmas that form a magnetodisk and an Io associated torus at Jupiter, while at Saturn there is a Titan torus and a substantial ring current.

Ness, N. F.↗

IDIMS/GEOPAK: Users manual for a geophysical data display and analysis system

The application of an existing image analysis system to the display and analysis of geophysical data is described, the potential for expanding the capabilities of such a system toward more advanced computer analytic and modeling functions is investigated. The major features of the IDIMS (Interactive Display and Image Manipulation System) and its applicability for image type analysis of geophysical data are described. Development of a basic geophysical data processing system to permit the image representation, coloring, interdisplay and comparison of geophysical data sets using existing IDIMS functions and to provide for the production of hard copies of processed images was described. An instruction manual and documentation for the GEOPAK subsystem was produced. A training course for personnel in the use of the IDIMS/GEOPAK was conducted. The effectiveness of the current IDIMS/GEOPAK system for geophysical data analysis was evaluated.

Libert, J. M.↗

Technology research for strapdown inertial experiment and digital flight control and guidance

A helicopter flight-test program to evaluate the performance of Honeywell's Tetrad - a strapdown, laser gyro, inertial navitation system is discussed. The results of 34 flights showed a mean final navigational velocity error of 5.06 knots, with a standard deviation of 3.84 knots; a corresponding mean final position error of 2.66 n.mi., with a standard deviation of 1.48 n.m.; and a modeled mean-position-error growth rate for the 34 tests of 1.96 knots, with a standard deviation of 1.09 knots. Tetrad's four-ring laser gyros provided reliable and accurate angular rate sensing during the test program and on sensor failures were detected during the evaluation. Criteria suitable for investigating cockpit systems in rotorcraft were developed. This criteria led to the development of two basic simulators. The first was a standard simulator which could be used to obtain baseline information for studying pilot workload and interactions. The second was an advanced simulator which integrated the RODAAS developed by Honeywell into this simulator. The second area also included surveying the aerospace industry to determine the level of use and impact of microcomputers and related components on avionics systems.

Carestia, R. A.↗

Design for validation: An approach to systems validation

Every complex system built is validated in some manner. Computer validation begins with review of the system design. As systems became too complicated for one person to review, validation began to rely on the application of adhoc methods by many individuals. As the cost of the changes mounted and the expense of failure increased, more organized procedures became essential. Attempts at devising and carrying out those procedures showed that validation is indeed a difficult technical problem. The successful transformation of the validation process into a systematic series of formally sound, integrated steps is necessary if the liability inherent in the future digita-system-based avionic and space systems is to be minimized. A suggested framework and timetable for the transformtion are presented. Basic working definitions of two pivotal ideas (validation and system life-cyle) are provided and show how the two concepts interact. Many examples are given of past and present validation activities by NASA and others. A conceptual framework is presented for the validation process. Finally, important areas are listed for ongoing development of the validation process at NASA Langley Research Center.

Carter, William C.↗

Development of a Multi-Disciplinary Computing Environment (MDICE)

The growing need for and importance of multi-component and multi-disciplinary engineering analysis has been understood for many years. For many applications, loose (or semi-implicit) coupling is optimal, and allows the use of various legacy codes without requiring major modifications. For this purpose, CFDRC and NASA LeRC have developed a computational environment to enable coupling between various flow analysis codes at several levels of fidelity. This has been referred to as the Visual Computing Environment (VCE), and is being successfully applied to the analysis of several aircraft engine components. Recently, CFDRC and AFRL/VAAC (WL) have extended the framework and scope of VCE to enable complex multi-disciplinary simulations. The chosen initial focus is on aeroelastic aircraft applications. The developed software is referred to as MDICE-AE, an extensible system suitable for integration of several engineering analysis disciplines. This paper describes the methodology, basic architecture, chosen software technologies, salient library modules, and the current status of and plans for MDICE. A fluid-structure interaction application is described in a separate companion paper.

Kingsley, Gerry↗

Autonomous Science Analyses of Digital Images for Mars Sample Return and Beyond

To adequately explore high priority landing sites, scientists require rovers with greater mobility. Therefore, future Mars missions will involve rovers capable of traversing tens of kilometers (vs. tens of meters traversed by Mars Pathfinder's Sojourner). However, the current process by which scientists interact with a rover does not scale to such distances. A single science objective is achieved through many iterations of a basic command cycle: (1) all data must be transmitted to Earth and analyzed; (2) from this data, new targets are selected and the necessary information from the appropriate instruments are requested; (3) new commands are then uplinked and executed by the spacecraft and (4) the resulting data are returned to Earth, starting the process again. Experience with rover tests on Earth shows that this time intensive process cannot be substantially shortened given the limited data downlink bandwidth and command cycle opportunities of real missions. Sending complete multicolor panoramas at several waypoints, for example, is out of the question for a single downlink opportunity. As a result, long traverses requiring many science command cycles would likely require many weeks, months or even years, perhaps exceeding rover design life or other constraints. Autonomous onboard science analyses can address these problems in two ways. First, it will allow the rover to transmit only "interesting" images, defined as those likely to have higher science content. Second, the rover will be able to anticipate future commands, for example acquiring and returning spectra of "interesting" rocks along with the images in which they were detected. Such approaches, coupled with appropriate navigational software, address both the data volume and command cycle bottlenecks that limit both rover mobility and science yield. We are developing algorithms to enable such intelligent decision making by autonomous spacecraft. Reflecting the ultimate level of ability we aim for, this program has been dubbed the "Grad Student on Mars Project". We envision, for example, an appropriately intelligent Athena-like rover at the Pathfinder landing site might be able to traverse over the ridge towards "Twin Peaks" to obtain better information on the stratigraphy of these "streamlined islands" or of the size, composition and morphology of boulders located on them. Along the traverse, the intelligent rover would collect and analyze images and obtain spectra of geologically interesting features or regions. The intelligent rover might also traverse further up Arcs Vallis, and find additional paleoflood stage indicators such as slackwater deposits. Recognizing additional regions where boulders are imbricated, noting changes in their size, distribution, morphology, composition and the associated changes in channel geometry would yield important information on the outflow channel's paleoflood history, Representative images and associated supporting data from these locations could be downlinked to Earth along with the data requested by scientists from the previous uplink opportunity. Our initial work has focused on recognizing geologically interesting portions of images. Here we summarize some of the algorithms to date.

Gulick, V. C.↗

Total Ionizing Dose Effects in MOS Oxides and Devices

The development of military and space electronics technology has traditionally been heavily influenced by the commercial semiconductor industry. The development of MOS technology, and particularly CMOS technology, as dominant commercial technologies has occurred entirely within the lifetime of the NSREC. For this reason, it is not surprising that the study of radiation interactions with MOS materials, devices and circuits has been a major theme of this conference for most of its history. The basic radiation problem in a MOS transistor is illustrated. The application of an appropriate gate voltage causes a conducting channel to form between the source and drain, so that current flows when the device is turned on. In Fig. lb, the effect of ionizing radiation is illustrated. Radiation-induced trapped charge has built up in the gate oxide, which causes a shift in the threshold voltage (that is, a change in the voltage which must be applied to turn the device on). If this shift is large enough, the device cannot be turned off, even at zero volts applied, and the device is said to have failed by going depletion mode.

Oldham, Timothy R.↗

Computational Aero-acoustics As a Tool For Turbo-machinery Noise Reduction

This talk will provide an overview of the field of computational aero-acoustics and its use in fan noise prediction. After a brief history of computational fluid dynamics, some of the recent developments in computational aero-acoustics will be explored. Computational issues concerning sound wave production, propagation, and reflection in practical turbo-machinery applications will be discussed including: (a) High order/High Resolution Numerical Techniques. (b) High Resolution Boundary Conditions. [c] MIMD Parallel Computing. [d] Form of Governing Equations Useful for Simulations. In addition, the basic design of our Broadband Analysis Stator Simulator (BASS) code and its application to a 2 D rotor wake-stator interaction will be shown. An example of the noise produced by the wakes from a rotor impinging upon a stator cascade will be shown.

Dyson, Rodger W.↗

Numerical Simulation of Protoplanetary Vortices

The fluid dynamics within a protoplanetary disk has been attracting the attention of many researchers for a few decades. Previous works include, to list only a few among many others, the well-known prescription of Shakura & Sunyaev, the convective and instability study of Stone & Balbus and Hawley et al., the Rossby wave approach of Lovelace et al., as well as a recent work by Klahr & Bodenheimer, which attempted to identify turbulent flow within the disk. The disk is commonly understood to be a thin gas disk rotating around a central star with differential rotation (the Keplerian velocity), and the central quest remains as how the flow behavior deviates (albeit by a small amount) from a strong balance established between gravitational and centrifugal forces, transfers mass and momentum inward, and eventually forms planetesimals and planets. In earlier works we have briefly described the possible physical processes involved in the disk; we have proposed the existence of long-lasting, coherent vortices as an efficient agent for mass and momentum transport. In particular, Barranco et al. provided a general mathematical framework that is suitable for the asymptotic regime of the disk; Barranco & Marcus (2000) addressed a proposed vortex-dust interaction mechanism which might lead to planetesimal formation; and Lin et al. (2002), as inspired by general geophysical vortex dynamics, proposed basic mechanisms by which vortices can transport mass and angular momentum. The current work follows up on our previous effort. We shall focus on the detailed numerical implementation of our problem. We have developed a parallel, pseudo-spectral code to simulate the full three-dimensional vortex dynamics in a stably-stratified, differentially rotating frame, which represents the environment of the disk. Our simulation is validated with full diagnostics and comparisons, and we present our results on a family of three-dimensional, coherent equilibrium vortices.

Lin, H.↗

Designing Flight Deck Procedures

Three reports address the design of flight-deck procedures and various aspects of human interaction with cockpit systems that have direct impact on flight safety. One report, On the Typography of Flight- Deck Documentation, discusses basic research about typography and the kind of information needed by designers of flight deck documentation. Flight crews reading poorly designed documentation may easily overlook a crucial item on the checklist. The report surveys and summarizes the available literature regarding the design and typographical aspects of printed material. It focuses on typographical factors such as proper typefaces, character height, use of lower- and upper-case characters, line length, and spacing. Graphical aspects such as layout, color coding, fonts, and character contrast are discussed; and several cockpit conditions such as lighting levels and glare are addressed, as well as usage factors such as angular alignment, paper quality, and colors. Most of the insights and recommendations discussed in this report are transferable to paperless cockpit systems of the future and computer-based procedure displays (e.g., "electronic flight bag") in aerospace systems and similar systems that are used in other industries such as medical, nuclear systems, maritime operations, and military systems.

Degani, Asaf↗

LOKI

LOKI is a simulation code that models weakly-coupled plasma evolution using Eulerian kinetic models in four phase space dimensions. The code is useful to understand basic plasma nonlinear plasma physics phenomena - in particular, wave-particle and wave-wave resonances that occur in laser plasma interactions. LOKI can simulate fundamental physical process in low-density plasmas on a scale of hundreds of light wavelengths. It does so by solving the Vlasov and Valsov-Fokker-Planck differential transport equations describing the collision less and low-collisionality evolution of charged particles in electromagnetic fields in two configuration space and two velocity space dimensions. Two principle electromagnetic models are provided: electrostatic (Poisson's Equation) and electromagnetic (Maxwell's equations).

Banks, Jeffrey↗

Harmonizing model organism data in the Alliance of Genome Resources

The Alliance of Genome Resources (the Alliance) is a combined effort of 7 knowledgebase projects: Saccharomyces Genome Database, WormBase, FlyBase, Mouse Genome Database, the Zebrafish Information Network, Rat Genome Database, and the Gene Ontology Resource. The Alliance seeks to provide several benefits: better service to the various communities served by these projects; a harmonized view of data for all biomedical researchers, bioinformaticians, clinicians, and students; and a more sustainable infrastructure. The Alliance has harmonized cross-organism data to provide useful comparative views of gene function, gene expression, and human disease relevance. The basis of the comparative views is shared calls of orthology relationships and the use of common ontologies. The key types of data are alleles and variants, gene function based on gene ontology annotations, phenotypes, association to human disease, gene expression, protein–protein and genetic interactions, and participation in pathways. The information is presented on uniform gene pages that allow facile summarization of information about each gene in each of the 7 organisms covered (budding yeast, roundworm Caenorhabditis elegans, fruit fly, house mouse, zebrafish, brown rat, and human). The harmonized knowledge is freely available on the alliancegenome.org portal, as downloadable files, and by APIs. We expect other existing and emerging knowledge bases to join in the effort to provide the union of useful data and features that each knowledge base currently provides.

59 BASIC BIOLOGICAL SCIENCES↗

Inositol Pentakisphosphate Isomers Bind PH Domains with Varying Specificity and Inhibit Phosphoinositide Interactions

PH domains represent one of the most common domains in the human proteome. These domains are recognized as important mediators of protein-phosphoinositide and protein-protein interactions. Phosphoinositides are lipid components of the membrane that function as signaling molecules by targeting proteins to their sites of action. Phosphoinositide based signaling pathways govern a diverse range of important cellular processes including membrane remodeling, differentiation, proliferation and survival. Myo-Inositol phosphates are soluble signaling molecules that are structurally similar to the head groups of phosphoinositides. These molecules have been proposed to function, at least in part, by regulating PH domain-phosphoinositide interactions. Given the structural similarity of inositol phosphates we were interested in examining the specificity of PH domains towards the family of myo-inositol pentakisphosphate isomers. In work reported here we demonstrate that the C-terminal PH domain of pleckstrin possesses the specificity required to discriminate between different myo-inositol pentakisphosphate isomers. The structural basis for this specificity was determined using high-resolution crystal structures. Moreover, we show that while the PH domain of Grp1 does not possess this high degree of specificity, the PH domain of protein kinase B does. These results demonstrate that some PH domains possess enough specificity to discriminate between myo-inositol pentakisphosphate isomers allowing for these molecules to differentially regulate interactions with phosphoinositides. Furthermore, this work contributes to the growing body of evidence supporting myo-inositol phosphates as regulators of important PH domain-phosphoinositide interactions. Finally, in addition to expanding our knowledge of cellular signaling, these results provide a basis for developing tools to probe biological pathway.

59 BASIC BIOLOGICAL SCIENCES↗

EVA Glove Research Team

The goal of the basic research portion of the extravehicular activity (EVA) glove research program is to gain a greater understanding of the kinematics of the hand, the characteristics of the pressurized EVA glove, and the interaction of the two. Examination of the literature showed that there existed no acceptable, non-invasive method of obtaining accurate biomechanical data on the hand. For this reason a project was initiated to develop magnetic resonance imaging as a tool for biomechanical data acquisition and visualization. Literature reviews also revealed a lack of practical modeling methods for fabric structures, so a basic science research program was also initiated in this area.

Strauss, Alvin M.↗

Final Scientific/Technical Report – March 2015

The Center for Interface Science: Solar Electric Materials (CISSEM) was funded by the U.S. Department of Energy, Office of Science, Basic Energy Sciences (BES) from August 1, 2009 – December 31, 2014 under Award Number DE-SC0001084, as part of a broad set of Energy Frontier Research Centers (EFRCs) designed to underpin the development of economical energy conversion platforms for the 21st century. CISSEM successfully integrated the research groups of 19 principal investigators at The University of Arizona (the lead institution), the Georgia Institute of Technology, Princeton University, the University of Washington, and the National Renewable Energy Laboratory (NREL) into a coordinated and synergistic program, while also building a highly productive collaboration with the SLAC National Accelerator Laboratory. Our mission was to advance the understanding of interface science underlying solar energy conversion technologies based on organic and organic-inorganic hybrid materials – specifically in organic photovoltaic solar cells (OPVs); and to inspire, recruit and train future scientists and leaders in the basic science of solar electric energy conversion. CISSEM researchers focused on establishing a foundational understanding of the electronic properties of interfaces in area-scalable, thin-film photovoltaic platforms. Metal oxide interlayers used in OPVs to improve the efficiency of charge harvesting at electrodes was our central focus. A key feature of CISSEM research has been our ability to develop a comprehensive understanding of interfaces and interfacial processes at the atomic and molecular scales. This is a scientific foundation for thin-film photovoltaic technologies and our nation’s pursuit of lowering the costs of transforming the sun’s energy into electricity. Our efforts combined: i) theoretical modeling; ii) new materials development; iii) developing new measurement science approaches to characterize composition, molecular and supramolecular structure, band edge energies, electrical properties, and charge harvesting or injection; and iv) integrating our use-inspired new materials and enhanced knowledge of interfaces and interfacial processes into OPV platforms. The strengths of the characterization methodologies developed in CISSEM were recognized within the EFRC network, and were a major component of our interactions with other DOE-funded programs including EFRCs. CISSEM research has resulted in a legacy of 120+ peer-reviewed publications describing our basic science. Much of this highly collaborative research will now be built upon at CISSEM member institutions, with other extramural funding sources. Furthermore, the state-of-the-art facilities and expertise created for modern interface science, especially as they pertain to energy conversion and energy storage challenges, will ensure their broadest continued impact. DOE EFRC funding has positively impacted and enhanced the training and development of more than 140 graduate students, postdoctoral researchers and research scientists at the five CISSEM institutions, and students from three Colorado universities associated with NREL. Our legacy also includes these student, postdoctoral researcher and scientist alumni who have taken positions of impact and responsibility in technology industries, government agencies and academia in the U.S., Asia and Europe.

14 SOLAR ENERGY↗