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At least 181 records · Page 10
All sourcesNASA NTRSDOE OSTI
NASA NTRS2000

Computer Modeling of the Earliest Cellular Structures and Functions

In the absence of extinct or extant record of protocells (the earliest ancestors of contemporary cells). the most direct way to test our understanding of the origin of cellular life is to construct laboratory models of protocells. Such efforts are currently underway in the NASA Astrobiology Program. They are accompanied by computational studies aimed at explaining self-organization of simple molecules into ordered structures and developing designs for molecules that perform proto-cellular functions. Many of these functions, such as import of nutrients, capture and storage of energy. and response to changes in the environment are carried out by proteins bound to membrane< We will discuss a series of large-scale, molecular-level computer simulations which demonstrate (a) how small proteins (peptides) organize themselves into ordered structures at water-membrane interfaces and insert into membranes, (b) how these peptides aggregate to form membrane-spanning structures (eg. channels), and (c) by what mechanisms such aggregates perform essential proto-cellular functions, such as proton transport of protons across cell walls, a key step in cellular bioenergetics. The simulations were performed using the molecular dynamics method, in which Newton's equations of motion for each item in the system are solved iteratively. The problems of interest required simulations on multi-nanosecond time scales, which corresponded to 10(exp 6)-10(exp 8) time steps.

Pohorille, Andrew↗
NASA NTRS2002

Artificial cells: prospects for biotechnology

A variety of techniques can now be used to alter the genome of a cell. Although these techniques are very powerful, they have limitations related to cost and efficiency of scale. Artificial cells designed for specific applications combine properties of biological systems such as nanoscale efficiency, self-organization and adaptability at relatively low cost. Individual components needed for such structures have already been developed, and now the main challenge is to integrate them in functional microscopic compartments. It will then become possible to design and construct communities of artificial cells that can perform different tasks related to therapeutic and diagnostic applications.

Review↗
NASA NTRS2001

Whole-cell biocomputing

The ability to manipulate systems on the molecular scale naturally leads to speculation about the rational design of molecular-scale machines. Cells might be the ultimate molecular-scale machines and our ability to engineer them is relatively advanced when compared with our ability to control the synthesis and direct the assembly of man-made materials. Indeed, engineered whole cells deployed in biosensors can be considered one of the practical successes of molecular-scale devices. However, these devices explore only a small portion of cellular functionality. Individual cells or self-organized groups of cells perform extremely complex functions that include sensing, communication, navigation, cooperation and even fabrication of synthetic nanoscopic materials. In natural systems, these capabilities are controlled by complex genetic regulatory circuits, which are only partially understood and not readily accessible for use in engineered systems. Here, we focus on efforts to mimic the functionality of man-made information-processing systems within whole cells.

Non-NASA Center↗
NASA NTRS2000

Shape-dependent control of cell growth, differentiation, and apoptosis: switching between attractors in cell regulatory networks

Development of characteristic tissue patterns requires that individual cells be switched locally between different phenotypes or "fates;" while one cell may proliferate, its neighbors may differentiate or die. Recent studies have revealed that local switching between these different gene programs is controlled through interplay between soluble growth factors, insoluble extracellular matrix molecules, and mechanical forces which produce cell shape distortion. Although the precise molecular basis remains unknown, shape-dependent control of cell growth and function appears to be mediated by tension-dependent changes in the actin cytoskeleton. However, the question remains: how can a generalized physical stimulus, such as cell distortion, activate the same set of genes and signaling proteins that are triggered by molecules which bind to specific cell surface receptors. In this article, we use computer simulations based on dynamic Boolean networks to show that the different cell fates that a particular cell can exhibit may represent a preprogrammed set of common end programs or "attractors" which self-organize within the cell's regulatory networks. In this type of dynamic network model of information processing, generalized stimuli (e.g., mechanical forces) and specific molecular cues elicit signals which follow different trajectories, but eventually converge onto one of a small set of common end programs (growth, quiescence, differentiation, apoptosis, etc.). In other words, if cells use this type of information processing system, then control of cell function would involve selection of preexisting (latent) behavioral modes of the cell, rather than instruction by specific binding molecules. Importantly, the results of the computer simulation closely mimic experimental data obtained with living endothelial cells. The major implication of this finding is that current methods used for analysis of cell function that rely on characterization of linear signaling pathways or clusters of genes with common activity profiles may overlook the most critical features of cellular information processing which normally determine how signal specificity is established and maintained in living cells. Copyright 2000 Academic Press.

Review↗
NASA NTRS1993

A Probabilistic Model for Simulating Magnetoacoustic Emission Responses in Ferromagnets

Magnetoacoustic emission (MAE) is a phenomenon where acoustic noise is generated due to the motion of non-180 magnetic domain walls in a ferromagnet with non-zero magnetostrictive constants. MAE has been studied extensively for many years and has even been applied as an NDE tool for characterizing the heat treatment of high-yield low carbon steels. A complete theory which fully accounts for the magnetoacoustic response, however, has not yet emerged. The motion of the domain walls appears to be a totally random process, however, it does exhibit features of regularity which have been identified by studying phenomena such as 1/f flicker noise and self-organized criticality (SOC). In this paper, a probabilistic model incorporating the effects of SOC has been developed to help explain the MAE response. The model uses many simplifying assumptions yet yields good qualitative agreement with observed experimental results and also provides some insight into the possible underlying mechanisms responsible for MAE. We begin by providing a brief overview of magnetoacoustic emission and the experimental set-up used to obtain the MAE signal. We then describe a pseudo-probabilistic model used to predict the MAE response and give an example of the predicted result. Finally, the model is modified to account for SOC and the new predictions are shown and compared with experiment.

Namkung, M.↗
NASA NTRS2003

Dissipating Step Bunches during Crystallization under Transport Control

In studies of crystal formation by the generation and spreading of layers, equidistant step trains are considered unstable---bunches and other spatiotemporal patterns of the growth steps are viewed as ubiquitous. We provide an example to the opposite. We monitor the spatiotemporal dynamics of steps and the resulting step patterns during crystallization of the proteins ferritin and apoferritin using the atomic force microscope. The variations in step velocity and density are not correlated, indicating the lack of a long-range attraction between the steps. We show that (i) because of its coupling to bulk transport, nucleation of new layers is chaotic and occurs at the facet edges, where the interfacial supersaturation is higher; (ii) step bunches self-organize via the competition for supply from the solution; and, (iii) bunches of weakly interacting steps decay as they move along the face. Tests by numerical modeling support the conclusions about the mechanisms underlying our observations. The results from these systems suggest that during crystallization controlled by transport, with weakly or noninteracting growth steps, the stable kinetic state of the surface is an equidistant step train, and step bunches only arise during nucleation of new layers. Since nucleation only occurs at a few sites on the surface, the surface morphology may be controllably patterned or smoothened by locally controlling nucleation.

Lin, Hong↗
NASA NTRS2003

Gene Expression Dynamics Inspector (GEDI): for integrative analysis of expression profiles

Genome-wide expression profiles contain global patterns that evade visual detection in current gene clustering analysis. Here, a Gene Expression Dynamics Inspector (GEDI) is described that uses self-organizing maps to translate high-dimensional expression profiles of time courses or sample classes into animated, coherent and robust mosaics images. GEDI facilitates identification of interesting patterns of molecular activity simultaneously across gene, time and sample space without prior assumption of any structure in the data, and then permits the user to retrieve genes of interest. Important changes in genome-wide activities may be quickly identified based on 'Gestalt' recognition and hence, GEDI may be especially useful for non-specialist end users, such as physicians. AVAILABILITY: GEDI v1.0 is written in Matlab, and binary Matlab.dll files which require Matlab to run can be downloaded for free by academic institutions at http://www.chip.org/~ge/gedihome.html Supplementary information: http://www.chip.org/~ge/gedihome.html.

Database Management Systems↗
NASA NTRS2005

Intermittent Turbulence and SOC Dynamics in a 2-D Driven Current-Sheet Model

Borovsky et al. have shown that Earth's magnetotail plasma sheet is strongly turbulent. More recently, Borovsky and Funsten have shown that eddy turbulence dominates and have suggested that the eddy turbulence is driven by fast flows that act as jets in the plasma. Through basic considerations of energy and magnetic flux conservation, these fast flows are thought to be localized to small portions of the total plasma sheet and to be generated by magnetic flux reconnection that is similarly localized. Angelopoulos et al., using single spacecraft Geotail data, have shown that the plasma sheet turbulence exhibits signs of intermittence and Weygand et al., using four spacecraft Cluster data, have confirmed and expanded on this conclusion. Uritsky et al., using Polar UVI image data, have shown that the evolution of bright, nightside, UV auroral emission regions is consistent with many of the properties of systems in self-organized criticality (SOC). Klimas et al. have suggested that the auroral dynamics is a reflection of the dynamics of the fast flows in the plasma. sheet. Their hypothesis is that the transport of magnetic fludenergy through the magnetotail is enabled by scale-free avalanches of localized reconnection whose SOC dynamics are reflected in the auroral UV emission dynamics. A corollary of this hypothesis is that the strong, intermittent, eddy turbulence of the plasma sheet is closely related to its critical dynamics. The question then arises: Can in situ evidence for the SOC dynamics be found in the properties of the plasma sheet turbulence? A 2-dimensional numerical driven current-sheet model of the central plasma sheet has been developed that incorporates an idealized current-driven instability with a resistive MHD system. It has been shown that the model can evolve into SOC in a physically relevant parameter regime. Initial results from a study of intermittent turbulence in this model and the relationship of this turbulence to the model's known SOC dynamics will be discussed.

Klimas, A. J.↗
NASA NTRS2003

'Heat from Above' Heat Capacity Measurements in Liquid He-4

We have made heat capacity measurements of superfluid He-4 at temperatures very close to the lambda point, T(sub lambda) , in a constant heat flux, Q, when the helium sample is heated from above. In this configuration the helium enters a self-organized (SOC) heat transport state at a temperature T(sub SOC)(Q), which for Q greater than or = 100 nW/sq cm lies below T(sub lambda). At low Q we observe little or no deviation from the bulk Q = 0 heat capacity up to T(sub SOC)(Q); beyond this temperature the heat capacity appears to be sharply depressed, deviating dramatically from its bulk behaviour. This marks the formation and propagation of a SOC/superfluid two phase state, which we confirm with a simple model. The excellent agreement between data and model serves as an independent confirmation of the existence of the SOC state. As Q is increased (up to 6 micron W/sq cm) we observe a Q dependant depression in the heat capacity that occurs just below T(sub SOC)(Q), when the entire sample is still superfluid. This is due to the emergence of a large thermal resistance in the sample, which we have measured and used to model the observed heat capacity depression. Our measurements of the superfluid thermal resistivity are a factor of ten larger than previous measurements by Baddar et al.

Lee, R. A. M.↗
NASA NTRS2005

Control Algorithms and Simulated Environment Developed and Tested for Multiagent Robotics for Autonomous Inspection of Propulsion Systems

The NASA Glenn Research Center and academic partners are developing advanced multiagent robotic control algorithms that will enable the autonomous inspection and repair of future propulsion systems. In this application, on-wing engine inspections will be performed autonomously by large groups of cooperative miniature robots that will traverse the surfaces of engine components to search for damage. The eventual goal is to replace manual engine inspections that require expensive and time-consuming full engine teardowns and allow the early detection of problems that would otherwise result in catastrophic component failures. As a preliminary step toward the long-term realization of a practical working system, researchers are developing the technology to implement a proof-of-concept testbed demonstration. In a multiagent system, the individual agents are generally programmed with relatively simple controllers that define a limited set of behaviors. However, these behaviors are designed in such a way that, through the localized interaction among individual agents and between the agents and the environment, they result in self-organized, emergent group behavior that can solve a given complex problem, such as cooperative inspection. One advantage to the multiagent approach is that it allows for robustness and fault tolerance through redundancy in task handling. In addition, the relatively simple agent controllers demand minimal computational capability, which in turn allows for greater miniaturization of the robotic agents.

Wong, Edmond↗
NASA NTRS2005

Binary Colloidal Alloy Test-3 (BCAT-3) Tabletop Space Station Experiment Continues

"As above, so below," thus begins the Emerald Tablet that was inscribed in 300 B.C., long before we could look into the heavens and see a space station that might serve as a platform for exploring other worlds and for exploring the natural ways that order arises out of chaos. To raze the ancient intent of this quote (and lift it out of context), we note that the effects of gravity would be balanced (removed) at the center of the Earth (below) and that this is also the case aboard the International Space Station (above). Yet, those of us on Earth are caught in the middle, where the effects of gravity are profound and disturbing for observers wanting to study nature s self-organizing tendencies, tendencies that are masked by sedimentation and convection on Earth.

Meyer, William V.↗
NASA NTRS2005

An Approach for Autonomy: A Collaborative Communication Framework for Multi-Agent Systems

Research done during the last three years has studied the emersion properties of Complex Adaptive Systems (CAS). The deployment of Artificial Intelligence (AI) techniques applied to remote Unmanned Aerial Vehicles has led the author to investigate applications of CAS within the field of Autonomous Multi-Agent Systems. The core objective of current research efforts is focused on the simplicity of Intelligent Agents (IA) and the modeling of these agents within complex systems. This research effort looks at the communication, interaction, and adaptability of multi-agents as applied to complex systems control. The embodiment concept applied to robotics has application possibilities within multi-agent frameworks. A new framework for agent awareness within a virtual 3D world concept is possible where the vehicle is composed of collaborative agents. This approach has many possibilities for applications to complex systems. This paper describes the development of an approach to apply this virtual framework to the NASA Goddard Space Flight Center (GSFC) tetrahedron structure developed under the Autonomous Nano Technology Swarm (ANTS) program and the Super Miniaturized Addressable Reconfigurable Technology (SMART) architecture program. These projects represent an innovative set of novel concepts deploying adaptable, self-organizing structures composed of many tetrahedrons. This technology is pushing current applied Agents Concepts to new levels of requirements and adaptability.

Dufrene, Warren Russell, Jr.↗
NASA NTRS2004

Comparing morphologies of drainage basins on Mars and Earth using integral-geometry and neural maps

We compare morphologies of drainage basins on Mars and Earth in order to confine the formation process of Martian valley networks. Basins on both planets are computationally extracted from digital topography. Integral-geometry methods are used to represent each basin by a circularity function that encapsulates its internal structure. The shape of such a function is an indicator of the style of fluvial erosion. We use the self-organizing map technique to construct a similarity graph for all basins. The graph reveals systematic differences between morphologies of basins on the two planets. This dichotomy indicates that terrestrial and Martian surfaces were eroded differently. We argue that morphologies of Martian basins are incompatible with runoff from sustained, homogeneous rainfall. Fluvial environments compatible with observed morphologies are discussed. We also construct a similarity graph based on the comparison of basins hypsometric curves to demonstrate that hypsometry is incapable of discriminating between terrestrial and Martian basins. INDEX TERMS: 1824 Hydrology: Geomorphology (1625); 1886 Hydrology: Weathering (1625); 5415 Planetology: Solid Surface Planets: Erosion and weathering; 6225 Planetology: Solar System Objects Mars. Citation: Stepinski, T. F., and S. Coradetti (2004), Comparing morphologies of drainage basins on Mars and Earth using integral-ge

Stepinski, T. F.↗
NASA NTRS2002

Multipoint sensing by intelligent collectives

Many remote sensing applications require that multiple sensors collect data simultaneously at spatially distributed locations and their information combined in order to characterize the phenomena of interest. Several basic classes of such multipoint measurement systems may be identified. For each, centralized methods exist for combining the raw data from the various sensors. However, recent advancements have given rise to small, integrated nodes comprised of one or more miniaturized sensors, processor, wireless communications capability and power supplies. Collections of these may be deployed and self-organized into intelligent sensor networks capable of performing cooperative signal processing locally, thereby providing substantial benefits.

multipoint measurement sensor networks↗
NASA NTRS2002

Improved dot size uniformity and luminescense of InAs quantum dots on InP substrate

InAs self-organized quantum dots have been grown in InGaAs quantum well on InP substrates by metalorganic vapor phase epitaxy. Atomic Force Microscopy confirmed of quantum dot formation with dot density of 3X10(sup 10) cm(sup -2). Improved dot size uniformity and strong room temperature photoluminescence up to 2 micron were observed after modifying the InGaAs well.

InAs quantum dot↗
NASA NTRS1997

On Hardware Evolvability and Levels of Granularity

Evolvable hardware addresses hardware that self-organizes/reconfigures under the guidance of evolutionary mechanisms. Some experiments in evolving at transistor level are briefly presented and the perspective of trnsistors as functional approximators is suggested.

Granularity Hardware↗
NASA NTRS1996

Probability Simulations by Non-Lipschitz Chaos

It has been demonstrated that classical probabilities, and in particular, probabilistic Turing machine, can be simulated by combining chaos and non-Lipschitz dynamics, without utilization of any man-made devices. Self-organizing properties of systems coupling simulated and calculated probabilities and their link to quantum computations are discussed.

classical dynamics classical probabilities probabi↗
NASA NTRS1993

Image and Video Compression with VLSI Neural Networks

An advanced motion-compensated predictive video compression system based on artificial neural networks has been developed to effectively eliminate the temporal and spatial redundancy of video image sequences and thus reduce the bandwidth and storage required for the transmission and recording of the video signal. The VLSI neuroprocessor for high-speed high-ratio image compression based upon a self-organization network and the conventional algorithm for vector quantization are compared. The proposed method is quite efficient and can achieve near-optimal results.

compression artificial neural networks VLSI↗