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Sample records for acp multiprocessor system

  1. The ACP (Advanced Computer Program) Branch bus and real-time applications of the ACP multiprocessor system

    SciTech Connect

    Hance, R.; Areti, H.; Atac, R.; Biel, J.; Cook, A.; Fischler, M.; Gaines, I.; Husby, D.; Nash, T.; Zmuda, T.

    1987-05-08

    The ACP Branchbus, a high speed differential bus for data movement in multiprocessing and data acquisition environments, is described. This bus was designed as the central bus in the ACP multiprocessing system. In its full implementation with 16 branches and a bus switch, it will handle data rates of 160 MByte/sec and allow reliable data transmission over inter rack distances. We also summarize applications of the ACP system in experimental data acquisition, triggering and monitoring, with special attention paid to FASTBUS environments.

  2. Validation of multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Siewiorek, D. P.; Segall, Z.; Kong, T.

    1982-01-01

    Experiments that can be used to validate fault free performance of multiprocessor systems in aerospace systems integrating flight controls and avionics are discussed. Engineering prototypes for two fault tolerant multiprocessors are tested.

  3. Spaceborne autonomous multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Fernquist, Alan

    1990-01-01

    The goal of this task is to provide technology for the specification and integration of advanced processors into the Space Station Freedom data management system environment through computer performance measurement tools, simulators, and an extended testbed facility. The approach focuses on five categories: (1) user requirements--determine the suitability of existing computer technologies and systems for real-time requirements of NASA missions; (2) system performance analysis--characterize the effects of languages, architectures, and commercially available hardware on real-time benchmarks; (3) system architecture--expand NASA's capability to solve problems with integrated numeric and symbolic requirements using advanced multiprocessor architectures; (4) parallel Ada technology--extend Ada software technology to utilize parallel architectures more efficiently; and (5) testbed--extend in-house testbed to support system performance and system analysis studies.

  4. Reproducibility in a multiprocessor system

    SciTech Connect

    Bellofatto, Ralph A; Chen, Dong; Coteus, Paul W; Eisley, Noel A; Gara, Alan; Gooding, Thomas M; Haring, Rudolf A; Heidelberger, Philip; Kopcsay, Gerard V; Liebsch, Thomas A; Ohmacht, Martin; Reed, Don D; Senger, Robert M; Steinmacher-Burow, Burkhard; Sugawara, Yutaka

    2013-11-26

    Fixing a problem is usually greatly aided if the problem is reproducible. To ensure reproducibility of a multiprocessor system, the following aspects are proposed; a deterministic system start state, a single system clock, phase alignment of clocks in the system, system-wide synchronization events, reproducible execution of system components, deterministic chip interfaces, zero-impact communication with the system, precise stop of the system and a scan of the system state.

  5. A multiprocessor operating system simulator

    SciTech Connect

    Johnston, G.M.; Campbell, R.H. . Dept. of Computer Science)

    1988-01-01

    This paper describes a multiprocessor operating system simulator that was developed by the authors in the Fall of 1987. The simulator was built in response to the need to provide students with an environment in which to build and test operating system concepts as part of the coursework of a third-year undergraduate operating systems course. Written in C++, the simulator uses the co-routine style task package that is distributed with the AT and T C++ Translator to provide a hierarchy of classes that represents a broad range of operating system software and hardware components. The class hierarchy closely follows that of the Choices family of operating systems for loosely and tightly coupled multiprocessors. During an operating system course, these classes are refined and specialized by students in homework assignments to facilitate experimentation with different aspects of operating system design and policy decisions. The current implementation runs on the IBM RT PC under 4.3bsd UNIX.

  6. A Multiprocessor Operating System Simulator

    NASA Technical Reports Server (NTRS)

    Johnston, Gary M.; Campbell, Roy H.

    1988-01-01

    This paper describes a multiprocessor operating system simulator that was developed by the authors in the Fall semester of 1987. The simulator was built in response to the need to provide students with an environment in which to build and test operating system concepts as part of the coursework of a third-year undergraduate operating systems course. Written in C++, the simulator uses the co-routine style task package that is distributed with the AT&T C++ Translator to provide a hierarchy of classes that represents a broad range of operating system software and hardware components. The class hierarchy closely follows that of the 'Choices' family of operating systems for loosely- and tightly-coupled multiprocessors. During an operating system course, these classes are refined and specialized by students in homework assignments to facilitate experimentation with different aspects of operating system design and policy decisions. The current implementation runs on the IBM RT PC under 4.3bsd UNIX.

  7. Shared performance monitor in a multiprocessor system

    DOEpatents

    Chiu, George; Gara, Alan G; Salapura, Valentina

    2014-12-02

    A performance monitoring unit (PMU) and method for monitoring performance of events occurring in a multiprocessor system. The multiprocessor system comprises a plurality of processor devices units, each processor device for generating signals representing occurrences of events in the processor device, and, a single shared counter resource for performance monitoring. The performance monitor unit is shared by all processor cores in the multiprocessor system. The PMU is further programmed to monitor event signals issued from non-processor devices.

  8. Spaceborne VHSIC multiprocessor system for AI applications

    NASA Technical Reports Server (NTRS)

    Lum, Henry, Jr.; Shrobe, Howard E.; Aspinall, John G.

    1988-01-01

    A multiprocessor system, under design for space-station applications, makes use of the latest generation symbolic processor and packaging technology. The result will be a compact, space-qualified system two to three orders of magnitude more powerful than present-day symbolic processing systems.

  9. Rollback Hardware For Time Warp Multiprocessor Systems

    NASA Technical Reports Server (NTRS)

    Robb, Michael J.; Buzzell, Calvin A.

    1996-01-01

    Rollback Chip (RBC) module is computer circuit board containing special-purpose memory circuits for use in multiprocessor computer system. Designed to help realize speedup potential of parallel processing for simulation of discrete events by use of Time Warp operating system.

  10. Shared performance monitor in a multiprocessor system

    DOEpatents

    Chiu, George; Gara, Alan G.; Salapura, Valentina

    2012-07-24

    A performance monitoring unit (PMU) and method for monitoring performance of events occurring in a multiprocessor system. The multiprocessor system comprises a plurality of processor devices units, each processor device for generating signals representing occurrences of events in the processor device, and, a single shared counter resource for performance monitoring. The performance monitor unit is shared by all processor cores in the multiprocessor system. The PMU comprises: a plurality of performance counters each for counting signals representing occurrences of events from one or more the plurality of processor units in the multiprocessor system; and, a plurality of input devices for receiving the event signals from one or more processor devices of the plurality of processor units, the plurality of input devices programmable to select event signals for receipt by one or more of the plurality of performance counters for counting, wherein the PMU is shared between multiple processing units, or within a group of processors in the multiprocessing system. The PMU is further programmed to monitor event signals issued from non-processor devices.

  11. Distributed parallel messaging for multiprocessor systems

    SciTech Connect

    Chen, Dong; Heidelberger, Philip; Salapura, Valentina; Senger, Robert M; Steinmacher-Burrow, Burhard; Sugawara, Yutaka

    2013-06-04

    A method and apparatus for distributed parallel messaging in a parallel computing system. The apparatus includes, at each node of a multiprocessor network, multiple injection messaging engine units and reception messaging engine units, each implementing a DMA engine and each supporting both multiple packet injection into and multiple reception from a network, in parallel. The reception side of the messaging unit (MU) includes a switch interface enabling writing of data of a packet received from the network to the memory system. The transmission side of the messaging unit, includes switch interface for reading from the memory system when injecting packets into the network.

  12. A multiprocessor airborne lidar data system

    NASA Technical Reports Server (NTRS)

    Wright, C. W.; Bailey, S. A.; Heath, G. E.; Piazza, C. R.

    1988-01-01

    A new multiprocessor data acquisition system was developed for the existing Airborne Oceanographic Lidar (AOL). This implementation simultaneously utilizes five single board 68010 microcomputers, the UNIX system V operating system, and the real time executive VRTX. The original data acquisition system was implemented on a Hewlett Packard HP 21-MX 16 bit minicomputer using a multi-tasking real time operating system and a mixture of assembly and FORTRAN languages. The present collection of data sources produce data at widely varied rates and require varied amounts of burdensome real time processing and formatting. It was decided to replace the aging HP 21-MX minicomputer with a multiprocessor system. A new and flexible recording format was devised and implemented to accommodate the constantly changing sensor configuration. A central feature of this data system is the minimization of non-remote sensing bus traffic. Therefore, it is highly desirable that each micro be capable of functioning as much as possible on-card or via private peripherals. The bus is used primarily for the transfer of remote sensing data to or from the buffer queue.

  13. A multiprocessor airborne lidar data system

    NASA Astrophysics Data System (ADS)

    Wright, C. W.; Bailey, S. A.; Heath, G. E.; Piazza, C. R.

    A new multiprocessor data acquisition system was developed for the existing Airborne Oceanographic Lidar (AOL). This implementation simultaneously utilizes five single board 68010 microcomputers, the UNIX system V operating system, and the real time executive VRTX. The original data acquisition system was implemented on a Hewlett Packard HP 21-MX 16 bit minicomputer using a multi-tasking real time operating system and a mixture of assembly and FORTRAN languages. The present collection of data sources produce data at widely varied rates and require varied amounts of burdensome real time processing and formatting. It was decided to replace the aging HP 21-MX minicomputer with a multiprocessor system. A new and flexible recording format was devised and implemented to accommodate the constantly changing sensor configuration. A central feature of this data system is the minimization of non-remote sensing bus traffic. Therefore, it is highly desirable that each micro be capable of functioning as much as possible on-card or via private peripherals. The bus is used primarily for the transfer of remote sensing data to or from the buffer queue.

  14. Partitioning of regular computation on multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Lee, Fung Fung

    1988-01-01

    Problem partitioning of regular computation over two dimensional meshes on multiprocessor systems is examined. The regular computation model considered involves repetitive evaluation of values at each mesh point with local communication. The computational workload and the communication pattern are the same at each mesh point. The regular computation model arises in numerical solutions of partial differential equations and simulations of cellular automata. Given a communication pattern, a systematic way to generate a family of partitions is presented. The influence of various partitioning schemes on performance is compared on the basis of computation to communication ratio.

  15. Partitioning of regular computation on multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Lee, Fung F.

    1990-01-01

    Problem partitioning of regular computation over two dimensional meshes on multiprocessor systems is examined. The regular computation model considered involves repetitive evaluation of values at each mesh point with local communication. The computational workload and the communication pattern are the same at each mesh point. The regular computation model arises in numerical solutions of partial differential equations and simulations of cellular automata. Given a communication pattern, a systematic way to generate a family of partitions is presented. The influence of various partitioning schemes on performance is compared on the basis of computation to communication ratio.

  16. Partitioning of regular computation on multiprocessor systems

    SciTech Connect

    Lee, F. . Computer Systems Lab.)

    1990-07-01

    Problem partitioning of regular computation over two-dimensional meshes on multiprocessor systems is examined. The regular computation model considered involves repetitive evaluation of values at each mesh point with local communication. The computational workload and the communication pattern are the same at each mesh point. The regular computation model arises in numerical solutions of partial differential equations and simulations of cellular automata. Given a communication pattern, a systematic way to generate a family of partitions is presented. The influence of various partitioning schemes on performance is compared on the basis of computation to communication ratio.

  17. Diagnosability issues in multiprocessor systems

    SciTech Connect

    Raghavan, V.

    1989-01-01

    In a seminal paper on fault diagnosis, Preparata, Metze, and Chien introduced a graph-theoretical model. Barsi, Grandoni, and Maestrini relaxed some constraints in this model to create a different model for fault diagnosis. Both these models have become the subject of intense research in the past two decades. A major open problem for these models is the question of sequential t-diagnosability-Given an arbitrary system of units and that there are no more than t faulty units in it, can we always identify at least one faulty unit The author shows that this problem is co-NP complete in both models. Recent research has shown that there are polynomial time algorithms to find the maximum number of faulty units a system can withstand and still identify all of them from a single collection of test results. He presents improved algorithms to solve this problem in both models. Using the letters n,m, and {tau} to denote the number of units, the number of tests, and the maximum number of faulty units respectively, our results can be summarized as follows: in the model of Barsi, Grandoni, and Maestrini, the algorithm has a time complexity of O(n{tau}{sup 2}/log{tau}) improving on the currently known O(n{tau}{sup 2}); in the model of Preparata, Metze, and Chien, the algorithm has a complexity of O(n{tau}{sup 2.5}) improving on the currently known O(mn{sup 1.5}). He also presents related results in the latter model, which suggest the possibility of reducing the complexity even further. Finally, he develops a general scheme for characterizing diagnosable systems. Using this scheme, he solves the open problem of characterizing t/s and sequentially t-diagnosable systems. The characterizations are then used to rederive some known results.

  18. Fault diagnosis in sparse multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Blough, Douglas M.; Sullivan, Gregory F.; Masson, Gerald M.

    1988-01-01

    The problem of fault diagnosis in multiprocessor systems is considered under a uniformly probabilistic model in which processors are faulty with probability p. This work focuses on minimizing the number of tests that must be conducted in order to correctly diagnose the state of every processor in the system with high probability. A diagnosis algorithm that can correctly diagnose the state of every processor with probability approaching one in a class of systems performing slightly greater than a linear number of tests is presented. A nearly matching lower bound on the number of tests required to achieve correct diagnosis in arbitrary systems is also proven. The number of tests required under this probabilistic model is shown to be significantly less than under a bounded-size fault set model. Because the number of tests that must be conducted is a measure of the diagnosis overhead, these results represent a dramatic improvement in the performance of system-level diagnosis technique.

  19. Preliminary basic performance analysis of the Cedar multiprocessor memory system

    NASA Technical Reports Server (NTRS)

    Gallivan, K.; Jalby, W.; Turner, S.; Veidenbaum, A.; Wijshoff, H.

    1991-01-01

    Some preliminary basic results on the performance of the Cedar multiprocessor memory system are presented. Empirical results are presented and used to calibrate a memory system simulator which is then used to discuss the scalability of the system.

  20. File-System Workload on a Scientific Multiprocessor

    NASA Technical Reports Server (NTRS)

    Kotz, David; Nieuwejaar, Nils

    1995-01-01

    Many scientific applications have intense computational and I/O requirements. Although multiprocessors have permitted astounding increases in computational performance, the formidable I/O needs of these applications cannot be met by current multiprocessors a their I/O subsystems. To prevent I/O subsystems from forever bottlenecking multiprocessors and limiting the range of feasible applications, new I/O subsystems must be designed. The successful design of computer systems (both hardware and software) depends on a thorough understanding of their intended use. A system designer optimizes the policies and mechanisms for the cases expected to most common in the user's workload. In the case of multiprocessor file systems, however, designers have been forced to build file systems based only on speculation about how they would be used, extrapolating from file-system characterizations of general-purpose workloads on uniprocessor and distributed systems or scientific workloads on vector supercomputers (see sidebar on related work). To help these system designers, in June 1993 we began the Charisma Project, so named because the project sought to characterize 1/0 in scientific multiprocessor applications from a variety of production parallel computing platforms and sites. The Charisma project is unique in recording individual read and write requests-in live, multiprogramming, parallel workloads (rather than from selected or nonparallel applications). In this article, we present the first results from the project: a characterization of the file-system workload an iPSC/860 multiprocessor running production, parallel scientific applications at NASA's Ames Research Center.

  1. VME rollback hardware for time warp multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Robb, Michael J.; Buzzell, Calvin A.

    1992-01-01

    The purpose of the research effort is to develop and demonstrate innovative hardware to implement specific rollback and timing functions required for efficient queue management and precision timekeeping in multiprocessor discrete event simulations. The previously completed phase 1 effort demonstrated the technical feasibility of building hardware modules which eliminate the state saving overhead of the Time Warp paradigm used in distributed simulations on multiprocessor systems. The current phase 2 effort will build multiple pre-production rollback hardware modules integrated with a network of Sun workstations, and the integrated system will be tested by executing a Time Warp simulation. The rollback hardware will be designed to interface with the greatest number of multiprocessor systems possible. The authors believe that the rollback hardware will provide for significant speedup of large scale discrete event simulation problems and allow multiprocessors using Time Warp to dramatically increase performance.

  2. Prefetching in file systems for MIMD multiprocessors

    NASA Technical Reports Server (NTRS)

    Kotz, David F.; Ellis, Carla Schlatter

    1990-01-01

    The question of whether prefetching blocks on the file into the block cache can effectively reduce overall execution time of a parallel computation, even under favorable assumptions, is considered. Experiments have been conducted with an interleaved file system testbed on the Butterfly Plus multiprocessor. Results of these experiments suggest that (1) the hit ratio, the accepted measure in traditional caching studies, may not be an adequate measure of performance when the workload consists of parallel computations and parallel file access patterns, (2) caching with prefetching can significantly improve the hit ratio and the average time to perform an I/O (input/output) operation, and (3) an improvement in overall execution time has been observed in most cases. In spite of these gains, prefetching sometimes results in increased execution times (a negative result, given the optimistic nature of the study). The authors explore why it is not trivial to translate savings on individual I/O requests into consistently better overall performance and identify the key problems that need to be addressed in order to improve the potential of prefetching techniques in the environment.

  3. PANDA: A distributed multiprocessor operating system

    SciTech Connect

    Chubb, P.

    1989-01-01

    PANDA is a design for a distributed multiprocessor and an operating system. PANDA is designed to allow easy expansion of both hardware and software. As such, the PANDA kernel provides only message passing and memory and process management. The other features needed for the system (device drivers, secondary storage management, etc.) are provided as replaceable user tasks. The thesis presents PANDA's design and implementation, both hardware and software. PANDA uses multiple 68010 processors sharing memory on a VME bus, each such node potentially connected to others via a high speed network. The machine is completely homogeneous: there are no differences between processors that are detectable by programs running on the machine. A single two-processor node has been constructed. Each processor contains memory management circuits designed to allow processors to share page tables safely. PANDA presents a programmers' model similar to the hardware model: a job is divided into multiple tasks, each having its own address space. Within each task, multiple processes share code and data. Tasks can send messages to each other, and set up virtual circuits between themselves. Peripheral devices such as disc drives are represented within PANDA by tasks. PANDA divides secondary storage into volumes, each volume being accessed by a volume access task, or VAT. All knowledge about the way that data is stored on a disc is kept in its volume's VAT. The design is such that PANDA should provide a useful testbed for file systems and device drivers, as these can be installed without recompiling PANDA itself, and without rebooting the machine.

  4. Techniques and tools for efficiently modeling multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Carpenter, T.; Yalamanchili, S.

    1990-01-01

    System-level tools and methodologies associated with an integrated approach to the development of multiprocessor systems are examined. Tools for capturing initial program structure, automated program partitioning, automated resource allocation, and high-level modeling of the combined application and resource are discussed. The primary language focus of the current implementation is Ada, although the techniques should be appropriate for other programming paradigms.

  5. C-MOS array design techniques: SUMC multiprocessor system study

    NASA Technical Reports Server (NTRS)

    Clapp, W. A.; Helbig, W. A.; Merriam, A. S.

    1972-01-01

    The current capabilities of LSI techniques for speed and reliability, plus the possibilities of assembling large configurations of LSI logic and storage elements, have demanded the study of multiprocessors and multiprocessing techniques, problems, and potentialities. Evaluated are three previous systems studies for a space ultrareliable modular computer multiprocessing system, and a new multiprocessing system is proposed that is flexibly configured with up to four central processors, four 1/0 processors, and 16 main memory units, plus auxiliary memory and peripheral devices. This multiprocessor system features a multilevel interrupt, qualified S/360 compatibility for ground-based generation of programs, virtual memory management of a storage hierarchy through 1/0 processors, and multiport access to multiple and shared memory units.

  6. Rollback-recovery techniques and architectural support for multiprocessor systems

    SciTech Connect

    Chiang Chungyang.

    1991-01-01

    The author proposes efficient and robust fault diagnosis and rollback-recovery techniques to enhance system availability as well as performance in both distributed-memory and shared-bus shared-memory multiprocessor systems. Architectural support for the proposed rollback-recovery technique in a bus-based shared-memory multiprocessor system is also investigated to adaptively fine tune the proposed rollback-recovery technique in this type of system. A comparison of the performance of the proposed techniques with other existing techniques is made, a topic on which little quantitative information is available in the literature. New diagnosis concepts are introduced to show that the author's diagnosis technique yields higher diagnosis coverage and facilitates the performance evaluation of various fault-diagnosis techniques.

  7. Cache as point of coherence in multiprocessor system

    DOEpatents

    Blumrich, Matthias A.; Ceze, Luis H.; Chen, Dong; Gara, Alan; Heidelberger, Phlip; Ohmacht, Martin; Steinmacher-Burow, Burkhard; Zhuang, Xiaotong

    2016-11-29

    In a multiprocessor system, a conflict checking mechanism is implemented in the L2 cache memory. Different versions of speculative writes are maintained in different ways of the cache. A record of speculative writes is maintained in the cache directory. Conflict checking occurs as part of directory lookup. Speculative versions that do not conflict are aggregated into an aggregated version in a different way of the cache. Speculative memory access requests do not go to main memory.

  8. Multiprocessor system with multiple concurrent modes of execution

    SciTech Connect

    Ahn, Daniel; Ceze, Luis H.; Chen, Dong Chen; Gara, Alan; Heidelberger, Philip; Ohmacht, Martin

    2016-11-22

    A multiprocessor system supports multiple concurrent modes of speculative execution. Speculation identification numbers (IDs) are allocated to speculative threads from a pool of available numbers. The pool is divided into domains, with each domain being assigned to a mode of speculation. Modes of speculation include TM, TLS, and rollback. Allocation of the IDs is carried out with respect to a central state table and using hardware pointers. The IDs are used for writing different versions of speculative results in different ways of a set in a cache memory.

  9. Multiprocessor system with multiple concurrent modes of execution

    DOEpatents

    Ahn, Daniel; Ceze, Luis H; Chen, Dong; Gara, Alan; Heidelberger, Philip; Ohmacht, Martin

    2013-12-31

    A multiprocessor system supports multiple concurrent modes of speculative execution. Speculation identification numbers (IDs) are allocated to speculative threads from a pool of available numbers. The pool is divided into domains, with each domain being assigned to a mode of speculation. Modes of speculation include TM, TLS, and rollback. Allocation of the IDs is carried out with respect to a central state table and using hardware pointers. The IDs are used for writing different versions of speculative results in different ways of a set in a cache memory.

  10. Programmable partitioning for high-performance coherence domains in a multiprocessor system

    DOEpatents

    Blumrich, Matthias A [Ridgefield, CT; Salapura, Valentina [Chappaqua, NY

    2011-01-25

    A multiprocessor computing system and a method of logically partitioning a multiprocessor computing system are disclosed. The multiprocessor computing system comprises a multitude of processing units, and a multitude of snoop units. Each of the processing units includes a local cache, and the snoop units are provided for supporting cache coherency in the multiprocessor system. Each of the snoop units is connected to a respective one of the processing units and to all of the other snoop units. The multiprocessor computing system further includes a partitioning system for using the snoop units to partition the multitude of processing units into a plurality of independent, memory-consistent, adjustable-size processing groups. Preferably, when the processor units are partitioned into these processing groups, the partitioning system also configures the snoop units to maintain cache coherency within each of said groups.

  11. Multiprocessor Adaptive Control Of A Dynamic System

    NASA Technical Reports Server (NTRS)

    Juang, Jer-Nan; Hyland, David C.

    1995-01-01

    Architecture for fully autonomous digital electronic control system developed for use in identification and adaptive control of dynamic system. Architecture modular and hierarchical. Combines relatively simple, standardized processing units into complex parallel-processing subsystems. Although architecture based on neural-network concept, processing units themselves not neural networks; processing units implemented by programming of currently available microprocessors.

  12. Expert Systems on Multiprocessor Architectures. Phase 1

    DTIC Science & Technology

    1988-08-01

    automated and employ special-purpose hardware. 2.2. ELINTs Outputs The primary outputs of the ELINT system are periodic status reports about the tracks and...composition can be automated . The CARE library includes a component, the iterated-cell, which represents a template for the creation of composite...standard calculations (for example, moving averages) and then to forward the results to selected panels. In order to automate the composition of probes

  13. Quantifying fault recovery in multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Malek, Miroslaw; Harary, Frank

    1990-01-01

    Various aspects of reliable computing are formalized and quantified with emphasis on efficient fault recovery. The mathematical model which proves to be most appropriate is provided by the theory of graphs. New measures for fault recovery are developed and the value of elements of the fault recovery vector are observed to depend not only on the computation graph H and the architecture graph G, but also on the specific location of a fault. In the examples, a hypercube is chosen as a representative of parallel computer architecture, and a pipeline as a typical configuration for program execution. Dependability qualities of such a system is defined with or without a fault. These qualities are determined by the resiliency triple defined by three parameters: multiplicity, robustness, and configurability. Parameters for measuring the recovery effectiveness are also introduced in terms of distance, time, and the number of new, used, and moved nodes and edges.

  14. Method and apparatus for single-stepping coherence events in a multiprocessor system under software control

    DOEpatents

    Blumrich, Matthias A.; Salapura, Valentina

    2010-11-02

    An apparatus and method are disclosed for single-stepping coherence events in a multiprocessor system under software control in order to monitor the behavior of a memory coherence mechanism. Single-stepping coherence events in a multiprocessor system is made possible by adding one or more step registers. By accessing these step registers, one or more coherence requests are processed by the multiprocessor system. The step registers determine if the snoop unit will operate by proceeding in a normal execution mode, or operate in a single-step mode.

  15. Efficient diagnosis of multiprocessor systems under probabilistic models

    NASA Technical Reports Server (NTRS)

    Blough, Douglas M.; Sullivan, Gregory F.; Masson, Gerald M.

    1989-01-01

    The problem of fault diagnosis in multiprocessor systems is considered under a probabilistic fault model. The focus is on minimizing the number of tests that must be conducted in order to correctly diagnose the state of every processor in the system with high probability. A diagnosis algorithm that can correctly diagnose the state of every processor with probability approaching one in a class of systems performing slightly greater than a linear number of tests is presented. A nearly matching lower bound on the number of tests required to achieve correct diagnosis in arbitrary systems is also proven. Lower and upper bounds on the number of tests required for regular systems are also presented. A class of regular systems which includes hypercubes is shown to be correctly diagnosable with high probability. In all cases, the number of tests required under this probabilistic model is shown to be significantly less than under a bounded-size fault set model. Because the number of tests that must be conducted is a measure of the diagnosis overhead, these results represent a dramatic improvement in the performance of system-level diagnosis techniques.

  16. Software Coherence in Multiprocessor Memory Systems. Ph.D. Thesis

    NASA Technical Reports Server (NTRS)

    Bolosky, William Joseph

    1993-01-01

    Processors are becoming faster and multiprocessor memory interconnection systems are not keeping up. Therefore, it is necessary to have threads and the memory they access as near one another as possible. Typically, this involves putting memory or caches with the processors, which gives rise to the problem of coherence: if one processor writes an address, any other processor reading that address must see the new value. This coherence can be maintained by the hardware or with software intervention. Systems of both types have been built in the past; the hardware-based systems tended to outperform the software ones. However, the ratio of processor to interconnect speed is now so high that the extra overhead of the software systems may no longer be significant. This issue is explored both by implementing a software maintained system and by introducing and using the technique of offline optimal analysis of memory reference traces. It finds that in properly built systems, software maintained coherence can perform comparably to or even better than hardware maintained coherence. The architectural features necessary for efficient software coherence to be profitable include a small page size, a fast trap mechanism, and the ability to execute instructions while remote memory references are outstanding.

  17. Distribution and reliability in a multiprocessor operating system

    SciTech Connect

    Sindhu, P.S.

    1984-01-01

    This thesis explores whether distributed hardware can be used to build reliable systems that are practical. It deals mostly with issues in the design and construction of the MEDUSA operating system, built to run of the distributed multiprocessor Cm. The goal is to exploit the redundancy, physical distribution, and powerful communication facilities within Cm to produce a robust system - one that can function satisfactorily in spite of hardware failure, bad data, heavy demands on its services, and other disruptive occurrences. The thesis demonstrates that, given appropriate hardware, it is possible to provide robustness without significantly sacrificing performance or greatly increasing complexity. Factors important to this success were 1) the treatment of reliability as a probabilistic rather than an absolute guarantee, which resulted in a structure whose components explicitly acknowledge and cope with failures in one another; 2) the adoption of a systematic approach to exception processing, which made the complexity of recovery manageable; and 3) the exploitation of system knowledge in the design of reliability mechanisms, which made it possible to achieve robustness while retaining good normal-case performance.

  18. MULTIPROCESSOR AND DISTRIBUTED PROCESSING BIBLIOGRAPHIC DATA BASE SOFTWARE SYSTEM

    NASA Technical Reports Server (NTRS)

    Miya, E. N.

    1994-01-01

    Multiprocessors and distributed processing are undergoing increased scientific scrutiny for many reasons. It is more and more difficult to keep track of the existing research in these fields. This package consists of a large machine-readable bibliographic data base which, in addition to the usual keyword searches, can be used for producing citations, indexes, and cross-references. The data base is compiled from smaller existing multiprocessing bibliographies, and tables of contents from journals and significant conferences. There are approximately 4,000 entries covering topics such as parallel and vector processing, networks, supercomputers, fault-tolerant computers, and cellular automata. Each entry is represented by 21 fields including keywords, author, referencing book or journal title, volume and page number, and date and city of publication. The data base contains UNIX 'refer' formatted ASCII data and can be implemented on any computer running under the UNIX operating system. The data base requires approximately one megabyte of secondary storage. The documentation for this program is included with the distribution tape, although it can be purchased for the price below. This bibliography was compiled in 1985 and updated in 1988.

  19. A general model for memory interference in a multiprocessor system with memory hierarchy

    NASA Technical Reports Server (NTRS)

    Taha, Badie A.; Standley, Hilda M.

    1989-01-01

    The problem of memory interference in a multiprocessor system with a hierarchy of shared buses and memories is addressed. The behavior of the processors is represented by a sequence of memory requests with each followed by a determined amount of processing time. A statistical queuing network model for determining the extent of memory interference in multiprocessor systems with clusters of memory hierarchies is presented. The performance of the system is measured by the expected number of busy memory clusters. The results of the analytic model are compared with simulation results, and the correlation between them is found to be very high.

  20. Modeling techniques in a parallelizing compiler for the B-HIVE multiprocessor system

    NASA Technical Reports Server (NTRS)

    Kim, Sukil; Agrawal, Dharma P.; Mauney, Jon; Leu, Ja-Song

    1989-01-01

    The parallelizing compiler for the B-HIVE loosely-coupled multiprocessor system uses a medium grain model to minimize the communication overhead. A medium grain model is shown to be an optimum way of merging fine grain operations into parallel tasks such that the parallelism obtained at the grain level is retained and communication overhead is decreased. A new communication model is introduced in this paper, allowing additional overlap between computation and communication. Simulation results indicate that the medium grain communication model shows promise for automatic parallelization for a loosely-coupled multiprocessor system.

  1. A distributed multiprocessor system designed for real-time image processing

    NASA Astrophysics Data System (ADS)

    Yin, Zhiyi; Heng, Wei

    2008-11-01

    In real-time image processing, a large amount of data is needed to be processed at a very high speed. Considering the problems faced in real-time image processing, a distributed multiprocessor system is proposed in this paper. In the design of the distributed multiprocessor system, processing tasks are allocated to various processes, which are bound to different CPUs. Several designs are discussed, and making full use of every process is very important to system's excellent performance. Furthermore, the problems of realization fasten on the inter-process communication, the synchronization, and the stability. System analysis and performance tests both show that the distributed multiprocessor system is able to improve system's performance variously, including the delay, the throughput rate, the stability, the scalability. And the system can be expanded easy at aspects of software and hardware. In a word, the distributed multiprocessor system designed for real-time image processing, based on distributed algorithms, not only improves system's performance variously, but also costs low and expands easy.

  2. Implementation of multigrid methods for solving Navier-Stokes equations on a multiprocessor system

    NASA Technical Reports Server (NTRS)

    Naik, Vijay K.; Taasan, Shlomo

    1987-01-01

    Presented are schemes for implementing multigrid algorithms on message based MIMD multiprocessor systems. To address the various issues involved, a nontrivial problem of solving the 2-D incompressible Navier-Stokes equations is considered as the model problem. Three different multigrid algorithms are considered. Results from implementing these algorithms on an Intel iPSC are presented.

  3. Dynamically reconfigurable multiprocessor system for high-order-bidirectional-associative-memory-based image recognition

    NASA Astrophysics Data System (ADS)

    Wu, Chwan-Hwa; Roland, David A.

    1991-08-01

    In this paper a high-order bidirectional associative memory (HOBAM) based image recognition system and a dynamically reconfigurable multiprocessor system that achieves real- time response are reported. The HOBAM has been utilized to recognize corrupted images of human faces (with hats, glasses, masks, and slight translation and scaling effects). In addition, the HOBAM, incorporated with edge detection techniques, has been used to recognize isolated objects within multiple-object images. Successful recognition rates have been achieved. A dynamically reconfigurable multiprocessor system and parallel software have been developed to achieve real-time response for image recognition. The system consists of Inmos transputers and crossbar switches (IMS C004). The communication links can be dynamically connected by circuit switching. This is the first time and the transputers and crossbar switches are reported to form a low-cost multiprocessor system connected by a switching network. Moreover, the switching network simplifies the design of the communication in parallel software without handling the message routing. Although the HOBAM is a fully connected network, the algorithm minimizes the amount of information that needs to be exchanged between processors using a data compression technique. The detailed design of both hardware and software are discussed in the paper. Significant speedup through parallel processing is accomplished. The architecture of the experimental system is a cost-effective design for an embedded system for neural network applications on computer vision.

  4. The Joint Polar Satellite System (JPSS) Program's Algorithm Change Process (ACP): Past, Present and Future

    NASA Technical Reports Server (NTRS)

    Griffin, Ashley

    2017-01-01

    The Joint Polar Satellite System (JPSS) Program Office is the supporting organization for the Suomi National Polar Orbiting Partnership (S-NPP) and JPSS-1 satellites. S-NPP carries the following sensors: VIIRS, CrIS, ATMS, OMPS, and CERES with instruments that ultimately produce over 25 data products that cover the Earths weather, oceans, and atmosphere. A team of scientists and engineers from all over the United States document, monitor and fix errors in operational software code or documentation with the algorithm change process (ACP) to ensure the success of the S-NPP and JPSS 1 missions by maintaining quality and accuracy of the data products the scientific community relies on. This poster will outline the programs algorithm change process (ACP), identify the various users and scientific applications of our operational data products and highlight changes that have been made to the ACP to accommodate operating system upgrades to the JPSS programs Interface Data Processing Segment (IDPS), so that the program is ready for the transition to the 2017 JPSS-1 satellite mission and beyond.

  5. High Performance, Dependable Multiprocessor

    NASA Technical Reports Server (NTRS)

    Ramos, Jeremy; Samson, John R.; Troxel, Ian; Subramaniyan, Rajagopal; Jacobs, Adam; Greco, James; Cieslewski, Grzegorz; Curreri, John; Fischer, Michael; Grobelny, Eric; George, Alan; Aggarwal, Vikas; Patel, Minesh; Some, Raphael

    2006-01-01

    With the ever increasing demand for higher bandwidth and processing capacity of today's space exploration, space science, and defense missions, the ability to efficiently apply commercial-off-the-shelf (COTS) processors for on-board computing is now a critical need. In response to this need, NASA's New Millennium Program office has commissioned the development of Dependable Multiprocessor (DM) technology for use in payload and robotic missions. The Dependable Multiprocessor technology is a COTS-based, power efficient, high performance, highly dependable, fault tolerant cluster computer. To date, Honeywell has successfully demonstrated a TRL4 prototype of the Dependable Multiprocessor [I], and is now working on the development of a TRLS prototype. For the present effort Honeywell has teamed up with the University of Florida's High-performance Computing and Simulation (HCS) Lab, and together the team has demonstrated major elements of the Dependable Multiprocessor TRLS system.

  6. Validation of fault-free behavior of a reliable multiprocessor system - FTMP: A case study. [Fault-Tolerant Multi-Processor avionics

    NASA Technical Reports Server (NTRS)

    Clune, E.; Segall, Z.; Siewiorek, D.

    1984-01-01

    A program of experiments has been conducted at NASA-Langley to test the fault-free performance of a Fault-Tolerant Multiprocessor (FTMP) avionics system for next-generation aircraft. Baseline measurements of an operating FTMP system were obtained with respect to the following parameters: instruction execution time, frame size, and the variation of clock ticks. The mechanisms of frame stretching were also investigated. The experimental results are summarized in a table. Areas of interest for future tests are identified, with emphasis given to the implementation of a synthetic workload generation mechanism on FTMP.

  7. Energy-efficient fault tolerance in multiprocessor real-time systems

    NASA Astrophysics Data System (ADS)

    Guo, Yifeng

    The recent progress in the multiprocessor/multicore systems has important implications for real-time system design and operation. From vehicle navigation to space applications as well as industrial control systems, the trend is to deploy multiple processors in real-time systems: systems with 4 -- 8 processors are common, and it is expected that many-core systems with dozens of processing cores will be available in near future. For such systems, in addition to general temporal requirement common for all real-time systems, two additional operational objectives are seen as critical: energy efficiency and fault tolerance. An intriguing dimension of the problem is that energy efficiency and fault tolerance are typically conflicting objectives, due to the fact that tolerating faults (e.g., permanent/transient) often requires extra resources with high energy consumption potential. In this dissertation, various techniques for energy-efficient fault tolerance in multiprocessor real-time systems have been investigated. First, the Reliability-Aware Power Management (RAPM) framework, which can preserve the system reliability with respect to transient faults when Dynamic Voltage Scaling (DVS) is applied for energy savings, is extended to support parallel real-time applications with precedence constraints. Next, the traditional Standby-Sparing (SS) technique for dual processor systems, which takes both transient and permanent faults into consideration while saving energy, is generalized to support multiprocessor systems with arbitrary number of identical processors. Observing the inefficient usage of slack time in the SS technique, a Preference-Oriented Scheduling Framework is designed to address the problem where tasks are given preferences for being executed as soon as possible (ASAP) or as late as possible (ALAP). A preference-oriented earliest deadline (POED) scheduler is proposed and its application in multiprocessor systems for energy-efficient fault tolerance is

  8. A high speed multi-tasking, multi-processor telemetry system

    SciTech Connect

    Wu, Kung Chris

    1996-12-31

    This paper describes a small size, light weight, multitasking, multiprocessor telemetry system capable of collecting 32 channels of differential signals at a sampling rate of 6.25 kHz per channel. The system is designed to collect data from remote wind turbine research sites and transfer the data via wireless communication. A description of operational theory, hardware components, and itemized cost is provided. Synchronization with other data acquisition systems and test data on data transmission rates is also given. 11 refs., 7 figs., 4 tabs.

  9. Embedded Multiprocessor Technology for VHSIC Insertion

    NASA Technical Reports Server (NTRS)

    Hayes, Paul J.

    1990-01-01

    Viewgraphs on embedded multiprocessor technology for VHSIC insertion are presented. The objective was to develop multiprocessor system technology providing user-selectable fault tolerance, increased throughput, and ease of application representation for concurrent operation. The approach was to develop graph management mapping theory for proper performance, model multiprocessor performance, and demonstrate performance in selected hardware systems.

  10. ScalaBLAST 2.0: Rapid and robust BLAST calculations on multiprocessor systems

    SciTech Connect

    Oehmen, Christopher S.; Baxter, Douglas J.

    2013-03-15

    BLAST remains one of the most widely used tools in computational biology. The rate at which new sequence data is available continues to grow exponentially, driving the emergence of new fields of biological research. At the same time multicore systems and conventional clusters are more accessible. ScalaBLAST has been designed to run on conventional multiprocessor systems with an eye to extreme parallelism, enabling parallel BLAST calculations using over 16,000 processing cores with a portable, robust, fault-resilient design. ScalaBLAST 2.0 source code can be freely downloaded from http://omics.pnl.gov/software/ScalaBLAST.php.

  11. Generation-based memory synchronization in a multiprocessor system with weakly consistent memory accesses

    DOEpatents

    Ohmacht, Martin

    2014-09-09

    In a multiprocessor system, a central memory synchronization module coordinates memory synchronization requests responsive to memory access requests in flight, a generation counter, and a reclaim pointer. The central module communicates via point-to-point communication. The module includes a global OR reduce tree for each memory access requesting device, for detecting memory access requests in flight. An interface unit is implemented associated with each processor requesting synchronization. The interface unit includes multiple generation completion detectors. The generation count and reclaim pointer do not pass one another.

  12. Engineering study for the functional design of a multiprocessor system

    NASA Technical Reports Server (NTRS)

    Miller, J. S.; Vandever, W. H.; Stanten, S. F.; Avakian, A. E.; Kosmala, A. L.

    1972-01-01

    The results are presented of a study to generate a functional system design of a multiprocessing computer system capable of satisfying the computational requirements of a space station. These data management system requirements were specified to include: (1) real time control, (2) data processing and storage, (3) data retrieval, and (4) remote terminal servicing.

  13. Multiprocessor architectural study

    NASA Technical Reports Server (NTRS)

    Kosmala, A. L.; Stanten, S. F.; Vandever, W. H.

    1972-01-01

    An architectural design study was made of a multiprocessor computing system intended to meet functional and performance specifications appropriate to a manned space station application. Intermetrics, previous experience, and accumulated knowledge of the multiprocessor field is used to generate a baseline philosophy for the design of a future SUMC* multiprocessor. Interrupts are defined and the crucial questions of interrupt structure, such as processor selection and response time, are discussed. Memory hierarchy and performance is discussed extensively with particular attention to the design approach which utilizes a cache memory associated with each processor. The ability of an individual processor to approach its theoretical maximum performance is then analyzed in terms of a hit ratio. Memory management is envisioned as a virtual memory system implemented either through segmentation or paging. Addressing is discussed in terms of various register design adopted by current computers and those of advanced design.

  14. FPGA-Based Multiprocessor System for Injection Molding Control

    PubMed Central

    Muñoz-Barron, Benigno; Morales-Velazquez, Luis; Romero-Troncoso, Rene J.; Rodriguez-Donate, Carlos; Trejo-Hernandez, Miguel; Benitez-Rangel, Juan P.; Osornio-Rios, Roque A.

    2012-01-01

    The plastic industry is a very important manufacturing sector and injection molding is a widely used forming method in that industry. The contribution of this work is the development of a strategy to retrofit control of an injection molding machine based on an embedded system microprocessors sensor network on a field programmable gate array (FPGA) device. Six types of embedded processors are included in the system: a smart-sensor processor, a micro fuzzy logic controller, a programmable logic controller, a system manager, an IO processor and a communication processor. Temperature, pressure and position are controlled by the proposed system and experimentation results show its feasibility and robustness. As validation of the present work, a particular sample was successfully injected. PMID:23202036

  15. FPGA-based multiprocessor system for injection molding control.

    PubMed

    Muñoz-Barron, Benigno; Morales-Velazquez, Luis; Romero-Troncoso, Rene J; Rodriguez-Donate, Carlos; Trejo-Hernandez, Miguel; Benitez-Rangel, Juan P; Osornio-Rios, Roque A

    2012-10-18

    The plastic industry is a very important manufacturing sector and injection molding is a widely used forming method in that industry. The contribution of this work is the development of a strategy to retrofit control of an injection molding machine based on an embedded system microprocessors sensor network on a field programmable gate array (FPGA) device. Six types of embedded processors are included in the system: a smart-sensor processor, a micro fuzzy logic controller, a programmable logic controller, a system manager, an IO processor and a communication processor. Temperature, pressure and position are controlled by the proposed system and experimentation results show its feasibility and robustness. As validation of the present work, a particular sample was successfully injected.

  16. Multiprocessor programming environment

    SciTech Connect

    Smith, M.B.; Fornaro, R.

    1988-12-01

    Programming tools and techniques have been well developed for traditional uniprocessor computer systems. The focus of this research project is on the development of a programming environment for a high speed real time heterogeneous multiprocessor system, with special emphasis on languages and compilers. The new tools and techniques will allow a smooth transition for programmers with experience only on single processor systems.

  17. Protocols for configuring computation loops on a distributed multiprocessor system

    SciTech Connect

    Woei Lin; Chuan-lin Wu

    1983-01-01

    Protocols for configuring computation loops in a multiprocessing system are examined. Processing nodes are connected by a reconfigurable communication subnet using a multistage interconnection network. Configuration protocols are presented in terms of distributed algorithms such that processing nodes are configured in loop topologies. The configurability of loop topologies is first investigated. It is verified that the communication subnet can emulate loop distributed systems. It is also proven that multiple loops of various lengths can be configured in the distributed network. The technique demonstrated for configuring loop topologies can be used to configure other computation topologies. 6 references.

  18. Scheduler for multiprocessor system switch with selective pairing

    DOEpatents

    Gara, Alan; Gschwind, Michael Karl; Salapura, Valentina

    2015-01-06

    System, method and computer program product for scheduling threads in a multiprocessing system with selective pairing of processor cores for increased processing reliability. A selective pairing facility is provided that selectively connects, i.e., pairs, multiple microprocessor or processor cores to provide one highly reliable thread (or thread group). The method configures the selective pairing facility to use checking provide one highly reliable thread for high-reliability and allocate threads to corresponding processor cores indicating need for hardware checking. The method configures the selective pairing facility to provide multiple independent cores and allocate threads to corresponding processor cores indicating inherent resilience.

  19. Safety Analysis of Heterogeneous-Multiprocessor Control System Software

    DTIC Science & Technology

    1990-12-01

    NAVAL POSTGRADUATE SCHOOL Monterey, California LD 00 N I DTIC G OE ECTE THESIS SAFETY ANALYSIS OF HETEROGENEOUS-MULTPROCESSOR CONTROL SYSTEM SOFTWARE...NAMEOFMONIURING ORGANIZATION Naval Postgraduate School (If Applicable) Naval Postgraduae- -- School 37 _ • 6c- ADDRESS (city, state, and ZIP code) 7b. ADDRESS...partial fulfillment of the requirements for the degree of MASTER OF SCIENCE IN COMPUTER SCIENCE from the NAVAL POSTGRADUATE SCHOOL December, 1990

  20. Expert Systems on Multiprocessor Architectures. Volume 2. Technical Reports

    DTIC Science & Technology

    1991-06-01

    interpretations of continuous streams of er- rorful data, a class of applications which curr-ntly run too slowly on serial black - board systems to be of practical...for distributed memory multi-procesor machinesiRice 881 [Nii 881. 2-16 other KS executions. KSs contain condition-action rules that can read the black ...KSs which interprets the data up the black - board’s levels of abstraction. KSs in Cage can be executed in parallel with or without synchronization at

  1. HyperForest: A high performance multi-processor architecture for real-time intelligent systems

    SciTech Connect

    Garcia, P. Jr.; Rebeil, J.P.; Pollard, H.

    1997-04-01

    Intelligent Systems are characterized by the intensive use of computer power. The computer revolution of the last few years is what has made possible the development of the first generation of Intelligent Systems. Software for second generation Intelligent Systems will be more complex and will require more powerful computing engines in order to meet real-time constraints imposed by new robots, sensors, and applications. A multiprocessor architecture was developed that merges the advantages of message-passing and shared-memory structures: expendability and real-time compliance. The HyperForest architecture will provide an expandable real-time computing platform for computationally intensive Intelligent Systems and open the doors for the application of these systems to more complex tasks in environmental restoration and cleanup projects, flexible manufacturing systems, and DOE`s own production and disassembly activities.

  2. Job-mix modeling and system analysis of an aerospace multiprocessor.

    NASA Technical Reports Server (NTRS)

    Mallach, E. G.

    1972-01-01

    An aerospace guidance computer organization, consisting of multiple processors and memory units attached to a central time-multiplexed data bus, is described. A job mix for this type of computer is obtained by analysis of Apollo mission programs. Multiprocessor performance is then analyzed using: 1) queuing theory, under certain 'limiting case' assumptions; 2) Markov process methods; and 3) system simulation. Results of the analyses indicate: 1) Markov process analysis is a useful and efficient predictor of simulation results; 2) efficient job execution is not seriously impaired even when the system is so overloaded that new jobs are inordinately delayed in starting; 3) job scheduling is significant in determining system performance; and 4) a system having many slow processors may or may not perform better than a system of equal power having few fast processors, but will not perform significantly worse.

  3. Commodity multi-processor systems in the ATLAS level-2 trigger

    SciTech Connect

    Abolins, M.; Blair, R.; Bock, R.; Bogaerts, A.; Dawson, J.; Ermoline, Y.; Hauser, R.; Kugel, A.; Lay, R.; Muller, M.; Noffz, K.-H.; Pope, B.; Schlereth, J.; Werner, P.

    2000-05-23

    Low cost SMP (Symmetric Multi-Processor) systems provide substantial CPU and I/O capacity. These features together with the ease of system integration make them an attractive and cost effective solution for a number of real-time applications in event selection. In ATLAS the authors consider them as intelligent input buffers (active ROB complex), as event flow supervisors or as powerful processing nodes. Measurements of the performance of one off-the-shelf commercial 4-processor PC with two PCI buses, equipped with commercial FPGA based data source cards (microEnable) and running commercial software are presented and mapped on such applications together with a long-term program of work. The SMP systems may be considered as an important building block in future data acquisition systems.

  4. Shared versus distributed memory multiprocessors

    NASA Technical Reports Server (NTRS)

    Jordan, Harry F.

    1991-01-01

    The question of whether multiprocessors should have shared or distributed memory has attracted a great deal of attention. Some researchers argue strongly for building distributed memory machines, while others argue just as strongly for programming shared memory multiprocessors. A great deal of research is underway on both types of parallel systems. Special emphasis is placed on systems with a very large number of processors for computation intensive tasks and considers research and implementation trends. It appears that the two types of systems will likely converge to a common form for large scale multiprocessors.

  5. Dynamic modelling and estimation of the error due to asynchronism in a redundant asynchronous multiprocessor system

    NASA Technical Reports Server (NTRS)

    Huynh, Loc C.; Duval, R. W.

    1986-01-01

    The use of Redundant Asynchronous Multiprocessor System to achieve ultrareliable Fault Tolerant Control Systems shows great promise. The development has been hampered by the inability to determine whether differences in the outputs of redundant CPU's are due to failures or to accrued error built up by slight differences in CPU clock intervals. This study derives an analytical dynamic model of the difference between redundant CPU's due to differences in their clock intervals and uses this model with on-line parameter identification to idenitify the differences in the clock intervals. The ability of this methodology to accurately track errors due to asynchronisity generate an error signal with the effect of asynchronisity removed and this signal may be used to detect and isolate actual system failures.

  6. Closed-form solutions of performability. [modeling of a degradable buffer/multiprocessor system

    NASA Technical Reports Server (NTRS)

    Meyer, J. F.

    1981-01-01

    Methods which yield closed form performability solutions for continuous valued variables are developed. The models are similar to those employed in performance modeling (i.e., Markovian queueing models) but are extended so as to account for variations in structure due to faults. In particular, the modeling of a degradable buffer/multiprocessor system is considered whose performance Y is the (normalized) average throughput rate realized during a bounded interval of time. To avoid known difficulties associated with exact transient solutions, an approximate decomposition of the model is employed permitting certain submodels to be solved in equilibrium. These solutions are then incorporated in a model with fewer transient states and by solving the latter, a closed form solution of the system's performability is obtained. In conclusion, some applications of this solution are discussed and illustrated, including an example of design optimization.

  7. Dynamic Scheduling Real-Time Task Using Primary-Backup Overloading Strategy for Multiprocessor Systems

    NASA Astrophysics Data System (ADS)

    Sun, Wei; Yu, Chen; Défago, Xavier; Inoguchi, Yasushi

    The scheduling of real-time tasks with fault-tolerant requirements has been an important problem in multiprocessor systems. The primary-backup (PB) approach is often used as a fault-tolerant technique to guarantee the deadlines of tasks despite the presence of faults. In this paper we propose a dynamic PB-based task scheduling approach, wherein an allocation parameter is used to search the available time slots for a newly arriving task, and the previously scheduled tasks can be re-scheduled when there is no available time slot for the newly arriving task. In order to improve the schedulability we also propose an overloading strategy for PB-overloading and Backup-backup (BB) overloading. Our proposed task scheduling algorithm is compared with some existing scheduling algorithms in the literature through simulation studies. The results have shown that the task rejection ratio of our real-time task scheduling algorithm is almost 50% lower than the compared algorithms.

  8. Multiprocessor execution of functional programs

    SciTech Connect

    Goldberg, B. )

    1988-10-01

    Functional languages have recently gained attention as vehicles for programming in a concise and element manner. In addition, it has been suggested that functional programming provides a natural methodology for programming multiprocessor computers. This paper describes research that was performed to demonstrate that multiprocessor execution of functional programs on current multiprocessors is feasible, and results in a significant reduction in their execution times. Two implementations of the functional language ALFL were built on commercially available multiprocessors. Alfalfa is an implementation on the Intel iPSC hypercube multiprocessor, and Buckwheat is an implementation on the Encore Multimax shared-memory multiprocessor. Each implementation includes a compiler that performs automatic decomposition of ALFL programs and a run-time system that supports their execution. The compiler is responsible for detecting the inherent parallelism in a program, and decomposing the program into a collection of tasks, called serial combinators, that can be executed in parallel. The abstract machine model supported by Alfalfa and Buckwheat is called heterogeneous graph reduction, which is a hybrid of graph reduction and conventional stack-oriented execution. This model supports parallelism, lazy evaluation, and higher order functions while at the same time making efficient use of the processors in the system. The Alfalfa and Buckwheat runtime systems support dynamic load balancing, interprocessor communication (if required), and storage management. A large number of experiments were performed on Alfalfa and Buckwheat for a variety of programs. The results of these experiments, as well as the conclusions drawn from them, are presented.

  9. Fault-free behavior of reliable multiprocessor systems: FTMP experiments in AIRLAB

    NASA Technical Reports Server (NTRS)

    Clune, E.; Segall, Z.; Siewiorek, D.

    1985-01-01

    This report describes a set of experiments which were implemented on the Fault tolerant Multi-Processor (FTMP) at NASA/Langley's AIRLAB facility. These experiments are part of an effort to formulate and evaluate validation methodologies for fault-tolerant computers. This report deals with the measurement of single parameters (baselines) of a fault free system. The initial set of baseline experiments lead to the following conclusions: (1) The system clock is constant and independent of workload in the tested cases; (2) the instruction execution times are constant; (3) the R4 frame size is 40mS with some variation; (4) the frame stretching mechanism has some flaws in its implementation that allow the possibility of an infinite stretching of frame duration. Future experiments are planned. Some will broaden the results of these initial experiments. Others will measure the system more dynamically. The implementation of a synthetic workload generation mechanism for FTMP is planned to enhance the experimental environment of the system.

  10. The 3-hydroxyacyl-ACP dehydratase component of the plant mitochondrial fatty acid synthase system.

    PubMed

    Guan, Xin; Okazaki, Yozo; Lithio, Andrew; Li, Ling; Zhao, Xuefeng; Jin, Huanan; Nettleton, Dan; Saito, Kazuki; Nikolau, Basil J

    2017-02-15

    We report the characterization of the Arabidopsis 3-hydroxyacyl-acyl carrier protein (ACP) dehydratase (mtHD) component of the mitochondrial fatty acid synthase (mtFAS) system, encoded by AT5G60335. The mitochondrial localization and catalytic capability of mtHD were demonstrated with a green fluorescent protein (GFP) transgenesis experiment, and by in vivo complementation and in vitro enzymatic assays. RNAi knockdown lines with reduced mtHD expression exhibit traits typically associated with mtFAS mutants, namely a miniaturized morphological appearance, reduced lipoylation of lipoylated proteins, and altered metabolomes consistent with the reduced catalytic activity of lipoylated enzymes. These alterations are reversed when mthd-rnai mutant plants are grown in a 1% CO2 atmosphere, indicating the link between mtFAS and photorespiratory deficiency due to the reduced lipoylation of glycine decarboxylase. In vivo biochemical feeding experiments illustrate that sucrose and glycolate are the metabolic modulators that mediate the alterations in morphology and lipid accumulation. In addition, both mthd-rnai and mtkas mutants exhibit reduced accumulation of 3-hydroxytetradecanoic acid (i.e. a hallmark of lipid A-like molecules) and abnormal chloroplastic starch granules; these changes are not reversible by the 1% CO2 atmosphere, demonstrating two novel mtFAS functions that are independent of photorespiration. Finally, RNA-Seq analysis revealed that mthd-rnai and mtkas mutants are near equivalent to each other in altering transcriptome, and these analyses further identified genes whose expression is affected by a functional mtFAS system, but independent of photorespiratory deficiency. These data demonstrate the non-redundant nature of the mtFAS system, which contributes unique lipid components needed to support plant cell structure and metabolism.

  11. Reconfigurable fault-tolerant multiprocessor system for real-time control

    SciTech Connect

    Kao, M.L.

    1986-01-01

    Real-time control applications place stringent constraints in computers controlling them since the failure of a computer could result in costly damages and even loss of human lives. Fault-tolerant computers, therefore, have been always in high demand in critical avionic and aerospace applications. However, the use of redundancy techniques to achieve fault tolerance in industrial applications has only recently become feasible due to the rapid decrease in cost and increase in performance of microprocessors. As more and more robots are being built to replace human beings in dangerous and difficult tasks, the need for a reliable computer for robotics control increases. This need, in particular, motivated the research described in this dissertation - the design and implementation of a reconfigurable fault-tolerant multiprocessor system (the FREMP system). The FREMP system consists of four processing units (PUs) and three common parallel buses. Each PU is a combination of an Intel 86/30 single board computer and a custom fault detection/masking circuit board (FDM board). A hardware/software combined scheme was devised to detect faults and correct errors. This scheme has shown to be more efficient than software voting while maintaining the flexibility of software approaches. Time-frame scheduling was adopted to schedule tasks for execution.

  12. Reusing existing resources for testing a multi-processor system-on-chip

    NASA Astrophysics Data System (ADS)

    Lee, Seung Eun

    2013-03-01

    In this article, we propose a test strategy for a multi-processor system-on-chip and model the test time for distributed Intellectual Property (IP) cores. The proposed test methodology uses the existing on-chip resources, IP cores and network elements in network-on-chip. The use of embedded IP cores as a built- in self-test (BIST) module completes the test much faster than an external test and provides flexibility in the test program. Moreover, the reuse of the existing network resources as a test media eliminates additional test access mechanism (TAM) wires in the design and increases test parallelism, reducing the area and test time. Based on the proposed test methodology, we evaluate the test time for distributed IP cores. First, we define the model for a distributed IP core with four parameters in the context of test purposes. Next, the required test time is driven. Finally, we show the characteristics of IP cores for a parallel testing that provides useful information for the test scheduling.

  13. Data traffic reduction schemes for Cholesky factorization on asynchronous multiprocessor systems

    NASA Technical Reports Server (NTRS)

    Naik, Vijay K.; Patrick, Merrell L.

    1989-01-01

    Communication requirements of Cholesky factorization of dense and sparse symmetric, positive definite matrices are analyzed. The communication requirement is characterized by the data traffic generated on multiprocessor systems with local and shared memory. Lower bound proofs are given to show that when the load is uniformly distributed the data traffic associated with factoring an n x n dense matrix using n to the alpha power (alpha less than or equal 2) processors is omega(n to the 2 + alpha/2 power). For n x n sparse matrices representing a square root of n x square root of n regular grid graph the data traffic is shown to be omega(n to the 1 + alpha/2 power), alpha less than or equal 1. Partitioning schemes that are variations of block assignment scheme are described and it is shown that the data traffic generated by these schemes are asymptotically optimal. The schemes allow efficient use of up to O(n to the 2nd power) processors in the dense case and up to O(n) processors in the sparse case before the total data traffic reaches the maximum value of O(n to the 3rd power) and O(n to the 3/2 power), respectively. It is shown that the block based partitioning schemes allow a better utilization of the data accessed from shared memory and thus reduce the data traffic than those based on column-wise wrap around assignment schemes.

  14. Efficient mapping algorithms for scheduling robot inverse dynamics computation on a multiprocessor system

    NASA Technical Reports Server (NTRS)

    Lee, C. S. G.; Chen, C. L.

    1989-01-01

    Two efficient mapping algorithms for scheduling the robot inverse dynamics computation consisting of m computational modules with precedence relationship to be executed on a multiprocessor system consisting of p identical homogeneous processors with processor and communication costs to achieve minimum computation time are presented. An objective function is defined in terms of the sum of the processor finishing time and the interprocessor communication time. The minimax optimization is performed on the objective function to obtain the best mapping. This mapping problem can be formulated as a combination of the graph partitioning and the scheduling problems; both have been known to be NP-complete. Thus, to speed up the searching for a solution, two heuristic algorithms were proposed to obtain fast but suboptimal mapping solutions. The first algorithm utilizes the level and the communication intensity of the task modules to construct an ordered priority list of ready modules and the module assignment is performed by a weighted bipartite matching algorithm. For a near-optimal mapping solution, the problem can be solved by the heuristic algorithm with simulated annealing. These proposed optimization algorithms can solve various large-scale problems within a reasonable time. Computer simulations were performed to evaluate and verify the performance and the validity of the proposed mapping algorithms. Finally, experiments for computing the inverse dynamics of a six-jointed PUMA-like manipulator based on the Newton-Euler dynamic equations were implemented on an NCUBE/ten hypercube computer to verify the proposed mapping algorithms. Computer simulation and experimental results are compared and discussed.

  15. Process Management and Exception Handling in Multiprocessor Operating Systems Using Object-Oriented Design Techniques. Revised Sep. 1988

    NASA Technical Reports Server (NTRS)

    Russo, Vincent; Johnston, Gary; Campbell, Roy

    1988-01-01

    The programming of the interrupt handling mechanisms, process switching primitives, scheduling mechanism, and synchronization primitives of an operating system for a multiprocessor require both efficient code in order to support the needs of high- performance or real-time applications and careful organization to facilitate maintenance. Although many advantages have been claimed for object-oriented class hierarchical languages and their corresponding design methodologies, the application of these techniques to the design of the primitives within an operating system has not been widely demonstrated. To investigate the role of class hierarchical design in systems programming, the authors have constructed the Choices multiprocessor operating system architecture the C++ programming language. During the implementation, it was found that many operating system design concerns can be represented advantageously using a class hierarchical approach, including: the separation of mechanism and policy; the organization of an operating system into layers, each of which represents an abstract machine; and the notions of process and exception management. In this paper, we discuss an implementation of the low-level primitives of this system and outline the strategy by which we developed our solution.

  16. Parallel processing of real-time dynamic systems simulation on OSCAR (Optimally SCheduled Advanced multiprocessoR)

    NASA Technical Reports Server (NTRS)

    Kasahara, Hironori; Honda, Hiroki; Narita, Seinosuke

    1989-01-01

    Parallel processing of real-time dynamic systems simulation on a multiprocessor system named OSCAR is presented. In the simulation of dynamic systems, generally, the same calculation are repeated every time step. However, we cannot apply to Do-all or the Do-across techniques for parallel processing of the simulation since there exist data dependencies from the end of an iteration to the beginning of the next iteration and furthermore data-input and data-output are required every sampling time period. Therefore, parallelism inside the calculation required for a single time step, or a large basic block which consists of arithmetic assignment statements, must be used. In the proposed method, near fine grain tasks, each of which consists of one or more floating point operations, are generated to extract the parallelism from the calculation and assigned to processors by using optimal static scheduling at compile time in order to reduce large run time overhead caused by the use of near fine grain tasks. The practicality of the scheme is demonstrated on OSCAR (Optimally SCheduled Advanced multiprocessoR) which has been developed to extract advantageous features of static scheduling algorithms to the maximum extent.

  17. Parallel implementation and evaluation of motion estimation system algorithms on a distributed memory multiprocessor using knowledge based mappings

    NASA Technical Reports Server (NTRS)

    Choudhary, Alok Nidhi; Leung, Mun K.; Huang, Thomas S.; Patel, Janak H.

    1989-01-01

    Several techniques to perform static and dynamic load balancing techniques for vision systems are presented. These techniques are novel in the sense that they capture the computational requirements of a task by examining the data when it is produced. Furthermore, they can be applied to many vision systems because many algorithms in different systems are either the same, or have similar computational characteristics. These techniques are evaluated by applying them on a parallel implementation of the algorithms in a motion estimation system on a hypercube multiprocessor system. The motion estimation system consists of the following steps: (1) extraction of features; (2) stereo match of images in one time instant; (3) time match of images from different time instants; (4) stereo match to compute final unambiguous points; and (5) computation of motion parameters. It is shown that the performance gains when these data decomposition and load balancing techniques are used are significant and the overhead of using these techniques is minimal.

  18. Programmable controller with a multiprocessor-based high speed interactive language system

    SciTech Connect

    Matsuzaki, K.; Hata, S.; Ohkochi, O.; Okamura, M.; Sugimoto, N.

    1983-01-01

    A multiprocessor-based programmable controller (PC) capable of sequence control and data processing has been developed. This PC consists of a custom processor for a relay ladder program and a 68000 16-bit microprocessor for a basic program. The basic program is executed by an interpreter which is an order faster than a conventional interpreter of a personal computer. The relay ladder program and the basic program can activate and communicate with each other. Although the controller features more control functions than conventional PCs, it can be easily operated interactively on site. 2 references.

  19. Multiprocessor execution of functional programs

    SciTech Connect

    Goldberg, B.F.

    1988-01-01

    Functional languages have recently gained attention as vehicles for programming in a concise and elegant manner. In addition, it has been suggested that functional programming provides a natural methodology for programming multiprocessor computers. This dissertation demonstrates that multiprocessor execution of functional programs is feasible, and results in a significant reduction in their execution times. Two implementations of the functional language ALFL were built on commercially available multiprocessors. ALFL is an implementation on the Intel iPSC hypercube multiprocessor, and Buckwheat is an implementation on the Encore Multimax shared-memory multiprocessor. Each implementation includes a compiler that performs automatic decomposition of ALFL programs. The compiler is responsible for detecting the inherent parallelism in a program, and decomposing the program into a collection of tasks, called serial combinators, that can be executed in parallel. One of the primary goals of the compiler is to generate serial combinators exhibiting the coarsest granularity possibly without sacrificing useful parallelism. This dissertation describes the algorithms used by the compiler to analyze, decompose, and optimize functional programs. The abstract machine model supported by Alfalfa and Buckwheat is called heterogeneous graph reduction, which is a hybrid of graph reduction and conventional stack-oriented execution. This model supports parallelism, lazy evaluation, and higher order functions while at the same time making efficient use of the processors in the system. The Alfalfa and Buckwheat run-time systems support dynamic load balancing, interprocessor communication (if required) and storage management. A large number of experiments were performed on Alfalfa and Buckwheat for a variety of programs. The results of these experiments, as well as the conclusions drawn from them, are presented.

  20. Communications Patterns in a Symbolic Multiprocessor.

    DTIC Science & Technology

    1987-06-01

    tied to memory through a ’ butterfly ’ switching network. All system memory is shared among all the proces- sors. There are no fundamental engineering...Palo Alto, CA, 1.0 edition, November 2 1982. , [51 Development of a Butterfly Multiprocessor Test Bed. Quarterly Technical Re- ,:€ port 5872, Bolt... Monarch multiprocessor. MIT VLSI Seminar, April 14 1987. Author is employed by B.B.N. Inc. [26] Alloan Gottlieb, Ralph Grishman, Clyde Kruskal, Kevin

  1. Optimal Scheme for Search State Space and Scheduling on Multiprocessor Systems

    NASA Astrophysics Data System (ADS)

    Youness, Hassan A.; Sakanushi, Keishi; Takeuchi, Yoshinori; Salem, Ashraf; Wahdan, Abdel-Moneim; Imai, Masaharu

    A scheduling algorithm aims to minimize the overall execution time of the program by properly allocating and arranging the execution order of the tasks on the core processors such that the precedence constraints among the tasks are preserved. In this paper, we present a new scheduling algorithm by using geometry analysis of the Task Precedence Graph (TPG) based on A* search technique and uses a computationally efficient cost function for guiding the search with reduced complexity and pruning techniques to produce an optimal solution for the allocation/scheduling problem of a parallel application to parallel and multiprocessor architecture. The main goal of this work is to significantly reduce the search space and achieve the optimality or near optimal solution. We implemented the algorithm on general task graph problems that are processed on most of related search work and obtain the optimal scheduling with a small number of states. The proposed algorithm reduced the exhaustive search by at least 50% of search space. The viability and potential of the proposed algorithm is demonstrated by an illustrative example.

  2. Multiprocessors and runtime compilation

    NASA Technical Reports Server (NTRS)

    Saltz, Joel; Berryman, Harry; Wu, Janet

    1990-01-01

    Runtime preprocessing plays a major role in many efficient algorithms in computer science, as well as playing an important role in exploiting multiprocessor architectures. Examples are given that elucidate the importance of runtime preprocessing and show how these optimizations can be integrated into compilers. To support the arguments, transformations implemented in prototype multiprocessor compilers are described and benchmarks from the iPSC2/860, the CM-2, and the Encore Multimax/320 are presented.

  3. A fault-tolerant multiprocessor architecture for aircraft, volume 1. [autopilot configuration

    NASA Technical Reports Server (NTRS)

    Smith, T. B.; Hopkins, A. L.; Taylor, W.; Ausrotas, R. A.; Lala, J. H.; Hanley, L. D.; Martin, J. H.

    1978-01-01

    A fault-tolerant multiprocessor architecture is reported. This architecture, together with a comprehensive information system architecture, has important potential for future aircraft applications. A preliminary definition and assessment of a suitable multiprocessor architecture for such applications is developed.

  4. Multi-ring performance of the Kendall square multiprocessor

    SciTech Connect

    Dunigan, T.H.

    1994-03-01

    Performance of the hierarchical shared-memory system of the Kendall Square Research multiprocessor is measured and characterized. The performance of prefetch is measured. Latency, bandwidth, and contention are analyzed on a 4-ring, 128 processor system. Scalability comparisons are made with other shared-memory and distributed-memory multiprocessors.

  5. Multiprocessor smalltalk: Implementation, performance, and analysis

    SciTech Connect

    Pallas, J.I.

    1990-01-01

    Multiprocessor Smalltalk demonstrates the value of object-oriented programming on a multiprocessor. Its implementation and analysis shed light on three areas: concurrent programming in an object oriented language without special extensions, implementation techniques for adapting to multiprocessors, and performance factors in the resulting system. Adding parallelism to Smalltalk code is easy, because programs already use control abstractions like iterators. Smalltalk's basic control and concurrency primitives (lambda expressions, processes and semaphores) can be used to build parallel control abstractions, including parallel iterators, parallel objects, atomic objects, and futures. Language extensions for concurrency are not required. This implementation demonstrates that it is possible to build an efficient parallel object-oriented programming system and illustrates techniques for doing so. Three modification tools-serialization, replication, and reorganization-adapted the Berkeley Smalltalk interpreter to the Firefly multiprocessor. Multiprocessor Smalltalk's performance shows that the combination of multiprocessing and object-oriented programming can be effective: speedups (relative to the original serial version) exceed 2.0 for five processors on all the benchmarks; the median efficiency is 48%. Analysis shows both where performance is lost and how to improve and generalize the experimental results. Changes in the interpreter to support concurrency add at most 12% overhead; better access to per-process variables could eliminate much of that. Changes in the user code to express concurrency add as much as 70% overhead; this overhead could be reduced to 54% if blocks (lambda expressions) were reentrant. Performance is also lost when the program cannot keep all five processors busy.

  6. Compiler-directed cache management in multiprocessors

    NASA Technical Reports Server (NTRS)

    Cheong, Hoichi; Veidenbaum, Alexander V.

    1990-01-01

    The necessity of finding alternatives to hardware-based cache coherence strategies for large-scale multiprocessor systems is discussed. Three different software-based strategies sharing the same goals and general approach are presented. They consist of a simple invalidation approach, a fast selective invalidation scheme, and a version control scheme. The strategies are suitable for shared-memory multiprocessor systems with interconnection networks and a large number of processors. Results of trace-driven simulations conducted on numerical benchmark routines to compare the performance of the three schemes are presented.

  7. Performance and scalability aspects of directory-based cache coherence in shared-memory multiprocessors

    SciTech Connect

    Picano, S.; Meyer, D.G.; Brooks, E.D. III; Hoag, J.E.

    1993-05-01

    We present a study that accentuates the performance and scalability aspects of directory-based cache coherence in multiprocessor systems. Using a multiprocessor with a software-based coherence scheme, efficient implementations rely heavily on the programmer`s ability to explicitly manage the memory system, which is typically handled by hardware support on other bus-based, shared memory multiprocessors. We describe a scalable, shared memory, cache coherent multiprocessor and present simulation results obtained on three parallel programs. This multiprocessor configuration exhibits high performance at no additional parallel programming cost.

  8. Insertion of coherence requests for debugging a multiprocessor

    DOEpatents

    Blumrich, Matthias A.; Salapura, Valentina

    2010-02-23

    A method and system are disclosed to insert coherence events in a multiprocessor computer system, and to present those coherence events to the processors of the multiprocessor computer system for analysis and debugging purposes. The coherence events are inserted in the computer system by adding one or more special insert registers. By writing into the insert registers, coherence events are inserted in the multiprocessor system as if they were generated by the normal coherence protocol. Once these coherence events are processed, the processing of coherence events can continue in the normal operation mode.

  9. Neural networks and MIMD-multiprocessors

    NASA Technical Reports Server (NTRS)

    Vanhala, Jukka; Kaski, Kimmo

    1990-01-01

    Two artificial neural network models are compared. They are the Hopfield Neural Network Model and the Sparse Distributed Memory model. Distributed algorithms for both of them are designed and implemented. The run time characteristics of the algorithms are analyzed theoretically and tested in practice. The storage capacities of the networks are compared. Implementations are done using a distributed multiprocessor system.

  10. Dynamic resource allocation in a hierarchical multiprocessor system: A preliminary study

    NASA Technical Reports Server (NTRS)

    Ngai, Tin-Fook

    1986-01-01

    An integrated system approach to dynamic resource allocation is proposed. Some of the problems in dynamic resource allocation and the relationship of these problems to system structures are examined. A general dynamic resource allocation scheme is presented. A hierarchial system architecture which dynamically maps between processor structure and programs at multiple levels of instantiations is described. Simulation experiments were conducted to study dynamic resource allocation on the proposed system. Preliminary evaluation based on simple dynamic resource allocation algorithms indicates that with the proposed system approach, the complexity of dynamic resource management could be significantly reduced while achieving reasonable effective dynamic resource allocation.

  11. A novel reconfigurable image-processing system using multi-processor

    NASA Astrophysics Data System (ADS)

    Mao, Hai-cen; Zhang, Tian-xu; Yang, Wei-dong; Li, Meng

    2005-10-01

    This paper presents a type of real-time image-processing system based on multi- processor (TI 320C6400). Modularization is adopted in this system. The system is multi-bus architecture. In each basic module communication is implemented via local bus. Between modules communication is implemented via so-called "Links" and multi-channel buffered serial ports (McBSP). The system is flexible and scalable and can be programmed as pipelined or SIMD or MIMD architecture to meet the variability of the parallel algorithm of image processing.

  12. Modeling and performance evaluation of the DPS25 packet switching multiprocessor system

    NASA Astrophysics Data System (ADS)

    Mitropoulos, Spyridon

    1987-05-01

    A packet switching communication network is evaluated via queue network modeling theory. Direct access memory systems, busses linking the network processors, commutation and signal processors, and virtual reference circuits are considered. All models are developed with the help of the QNAP2 program and listings of the models are given. The method is illustrated with results from simulations at the various system levels.

  13. State recovery and lockstep execution restart in a system with multiprocessor pairing

    DOEpatents

    Gara, Alan; Gschwind, Michael K; Salapura, Valentina

    2014-01-21

    System, method and computer program product for a multiprocessing system to offer selective pairing of processor cores for increased processing reliability. A selective pairing facility is provided that selectively connects, i.e., pairs, multiple microprocessor or processor cores to provide one highly reliable thread (or thread group). Each paired microprocessor or processor cores that provide one highly reliable thread for high-reliability connect with a system components such as a memory "nest" (or memory hierarchy), an optional system controller, and optional interrupt controller, optional I/O or peripheral devices, etc. The memory nest is attached to a selective pairing facility via a switch or a bus. Each selectively paired processor core is includes a transactional execution facility, whereing the system is configured to enable processor rollback to a previous state and reinitialize lockstep execution in order to recover from an incorrect execution when an incorrect execution has been detected by the selective pairing facility.

  14. The design, creation, and performance of the parallel multiprocessor nuclear physics data acquisition system, DAPHNE

    SciTech Connect

    Welch, L.C.; Moog, T.H.; Daly, R.T.; Videbaek, F.

    1986-01-01

    The ever increasing complexity of nuclear physics experiments places severe demands on computerized data acquisition systems. A natural evolution of these system, taking advantage of the independent nature of ''events'', is to use identical parallel microcomputers in a front end to simultaneously analyze separate events. Such a system has been developed at Argonne to serve the needs of the experimental program of ATLAS, a new superconducting heavy-ion accelerator and other on-going research. Using microcomputers based on the National Semiconductor 32016 microprocessor housed in a Multibus I cage, multi-VAX cpu power is obtained at a fraction of the cost of one VAX. The front end interfaces to a VAX 750 on which an extensive user friendly command language based on DCL resides. The whole system, known as DAPHNE, also provides the means to replay data using the same command language. Design concepts, data structures, performance, and experience to data are discussed. 5 refs., 2 figs.

  15. A real-time multiprocessor system for knowledge-based target-tracking

    NASA Astrophysics Data System (ADS)

    Irwin, P. D. S.; Farson, S. A.; Wilkinson, A. J.

    1989-12-01

    A real-time processing architecture for implementation of knowledge-based algorithms employed in infrared-image interpretation is described. Three stages of image interpretation (image segmentation, feature extraction, and feature examination by a knowledge-based system) are outlined. Dedicated hardware for the image segmentation and feature extraction are covered, along with a multitransputer architecture for implementation of data-dependent processes. Emphasis is placed on implementation of the description, frame-hypothesis, and slot-filling algorithms. An optimal algorithm for scheduling various tasks involved in implementing the rule set of the knowledge-based system is presented.

  16. Development of an ACP facility

    SciTech Connect

    Gil-Sung You; Won-Myung Choung; Jeong-Hoe Ku; il-Je Cho; Dong-Hak Kook; Kie-Chan Kwon; Eun-Pyo Lee; Ji-Sup Yoon; Seong-Won Park; Won-Kyung Lee

    2007-07-01

    KAERI has been developing an advanced spent fuel conditioning process (ACP). The ACP facility for a process demonstration consists of two air-sealed type hot cells. The safety analysis results showed that the facility was designed safely. The relevant integrated performance tests were also carried out successfully. (authors)

  17. Hardware for a real-time multiprocessor simulator

    NASA Technical Reports Server (NTRS)

    Blech, R. A.; Arpasi, D. J.

    1984-01-01

    The hardware for a real time multiprocessor simulator (RTMPS) developed at the NASA Lewis Research Center is described. The RTMPS is a multiple microprocessor system used to investigate the application of parallel processing concepts to real time simulation. It is designed to provide flexible data exchange paths between processors by using off the shelf microcomputer boards and minimal customized interfacing. A dedicated operator interface allows easy setup of the simulator and quick interpreting of simulation data. Simulations for the RTMPS are coded in a NASA designed real time multiprocessor language (RTMPL). This language is high level and geared to the multiprocessor environment. A real time multiprocessor operating system (RTMPOS) has also been developed that provides a user friendly operator interface. The RTMPS and supporting software are currently operational and are being evaluated at Lewis. The results of this evaluation will be used to specify the design of an optimized parallel processing system for real time simulation of dynamic systems.

  18. Reader set encoding for directory of shared cache memory in multiprocessor system

    DOEpatents

    Ahn, Dnaiel; Ceze, Luis H.; Gara, Alan; Ohmacht, Martin; Xiaotong, Zhuang

    2014-06-10

    In a parallel processing system with speculative execution, conflict checking occurs in a directory lookup of a cache memory that is shared by all processors. In each case, the same physical memory address will map to the same set of that cache, no matter which processor originated that access. The directory includes a dynamic reader set encoding, indicating what speculative threads have read a particular line. This reader set encoding is used in conflict checking. A bitset encoding is used to specify particular threads that have read the line.

  19. Multiprocessor performance modeling with ADAS

    NASA Technical Reports Server (NTRS)

    Hayes, Paul J.; Andrews, Asa M.

    1989-01-01

    A graph managing strategy referred to as the Algorithm to Architecture Mapping Model (ATAMM) appears useful for the time-optimized execution of application algorithm graphs in embedded multiprocessors and for the performance prediction of graph designs. This paper reports the modeling of ATAMM in the Architecture Design and Assessment System (ADAS) to make an independent verification of ATAMM's performance prediction capability and to provide a user framework for the evaluation of arbitrary algorithm graphs. Following an overview of ATAMM and its major functional rules are descriptions of the ADAS model of ATAMM, methods to enter an arbitrary graph into the model, and techniques to analyze the simulation results. The performance of a 7-node graph example is evaluated using the ADAS model and verifies the ATAMM concept by substantiating previously published performance results.

  20. Debugging in a multi-processor environment

    SciTech Connect

    Spann, J.M.

    1981-09-29

    The Supervisory Control and Diagnostic System (SCDS) for the Mirror Fusion Test Facility (MFTF) consists of nine 32-bit minicomputers arranged in a tightly coupled distributed computer system utilizing a share memory as the data exchange medium. Debugging of more than one program in the multi-processor environment is a difficult process. This paper describes what new tools were developed and how the testing of software is performed in the SCDS for the MFTF project.

  1. Queueing analysis of a canonical model of real-time multiprocessors

    NASA Technical Reports Server (NTRS)

    Krishna, C. M.; Shin, K. G.

    1983-01-01

    A logical classification of multiprocessor structures from the point of view of control applications is presented. A computation of the response time distribution for a canonical model of a real time multiprocessor is presented. The multiprocessor is approximated by a blocking model. Two separate models are derived: one created from the system's point of view, and the other from the point of view of an incoming task.

  2. Evict on write, a management strategy for a prefetch unit and/or first level cache in a multiprocessor system with speculative execution

    DOEpatents

    Gara, Alan; Ohmacht, Martin

    2014-09-16

    In a multiprocessor system with at least two levels of cache, a speculative thread may run on a core processor in parallel with other threads. When the thread seeks to do a write to main memory, this access is to be written through the first level cache to the second level cache. After the write though, the corresponding line is deleted from the first level cache and/or prefetch unit, so that any further accesses to the same location in main memory have to be retrieved from the second level cache. The second level cache keeps track of multiple versions of data, where more than one speculative thread is running in parallel, while the first level cache does not have any of the versions during speculation. A switch allows choosing between modes of operation of a speculation blind first level cache.

  3. Back propagation parameter analysis on multiprocessors

    SciTech Connect

    Cerf, G.; Mokry, R.; Weintraub, J.

    1988-09-01

    In order to develop systems of artificial neural networks which can be scaled up to perform practical tasks such as pattern recognition or speech processing, the use of powerful computing tools is essential. Multiprocessors are becoming increasingly popular in the simulation and study of large networks, as the inherent parallelism of many neural architectures and learning algorithms lends itself quite naturally to implementation on concurrent processors. In this study, a multiprocessor system based on the Inmos transputer has been used to examine the stability and convergence rates of the back propagation algorithm as a function of changes in parameters such as activation values, number of hidden units, learning rate, momentum, and initial weight and bias configurations. The Victor V32 is a prototype low-cost message-passing multiprocessor system, designed and implemented by the Victor project in the Microsystems and VLSI group at the IBM T.J. Watson Research Center. A sample topology for the system is 32 nodes in a fixed 4 x 8 mesh. A host processor interfaced to a PC AT and connected to one of the corners of the mesh provides screen and disc I/O. Each of the 32 nodes consists of an INMOS T414 transputer and 4 Megabytes of local memory. Four high-speed (20 Mbits/sec) serial links provide communication among the nodes.

  4. Modeling the Performance of the Concert Multiprocessor.

    DTIC Science & Technology

    1987-05-01

    215, ,’ [MIJ Merchant, S.S., "llie Design and Performancc Analysis of an Arbiter for a Multiprocessor Sharcd-Mcmory System", Report #IlDS-Tl-[-1396...6IFIATION OF THIS PAGE AD-41 -361q P - REPORT DOCUMENTATION PAGE l. REPORT SECURITY CLASSIFICATION lb RESTRICTIVE MARKINGS Unclassified 2a. SECURITY...CLASSIFICATION AUTHORITY 3. DISTRIBUTION /AVAILABILITY OF REPORT 2b. DECLASSIFICATION IDOWNGRADING SCHEDULE Approved for public release; distribution is

  5. Shewanella oneidensis FabB: A β-ketoacyl-ACP Synthase That Works with C16:1-ACP.

    PubMed

    Luo, Qixia; Li, Meng; Fu, Huihui; Meng, Qiu; Gao, Haichun

    2016-01-01

    It is established that Escherichia coli β-ketoacyl-ACP synthase (KAS) I (encoded by EcfabB) is the primary, if not exclusive, factor for elongation of the cis-3-decenoyl-ACP (C10:1-ACP) but not effective with C16:1- or longer-chain-ACPs. To test the extent to which these features apply to KAS I proteins in other species, in this study, we examined the physiological role of FabB in Shewanella oneidensis, an excellent model for researching type II fatty acid synthetic (FAS) system and its regulation. We showed that the loss of either FabA (the enzyme that introduces double bond) or FabB, in the absence of DesA which desaturizes C16 and C18 to generate respective C16:1 and C18:1, leads to a UFA auxotroph. However, fatty acid profiles of membrane phospholipid of the fabA and fabB mutants are significantly different, suggesting that FabB participates in steps beyond elongation of C10:1-ACP. Further analyses demonstrated that S. oneidensis FabB differs from EcFabB in that (i) it is not the only enzyme capable of catalyzing elongation of the cis-3-decenoyl-ACP produced by FabA, (ii) it plays a critical role in elongation of C16:1- and longer-chain-ACPs, and (iii) its overproduction is detrimental.

  6. Acyl-ACP thioesterases from castor (Ricinus communis L.): an enzymatic system appropriate for high rates of oil synthesis and accumulation.

    PubMed

    Sánchez-García, Alicia; Moreno-Pérez, Antonio J; Muro-Pastor, Alicia M; Salas, Joaquín J; Garcés, Rafael; Martínez-Force, Enrique

    2010-06-01

    Acyl-acyl carrier protein (ACP) thioesterases are enzymes that terminate the intraplastidial fatty acid synthesis in plants by hydrolyzing the acyl-ACP intermediates and releasing free fatty acids to be incorporated into glycerolipids. These enzymes are classified in two families, FatA and FatB, which differ in amino acid sequence and substrate specificity. In the present work, both FatA and FatB thioesterases were cloned, sequenced and characterized from castor (Ricinus communis) seeds, a crop of high interest in oleochemistry. Single copies of FatA and FatB were found in castor resulting to be closely related with those of Jatropha curcas. The corresponding mature proteins were heterologously expressed in Escherichia coli for biochemical characterization after purification, resulting in high catalytic efficiency of RcFatA on oleoyl-ACP and palmitoleoyl-ACP and high efficiencies of RcFatB for oleoyl-ACP and palmitoyl-ACP. The expression profile of these genes displayed the highest levels in expanding tissues that typically are very active in lipid biosynthesis such as developing seed endosperm and young expanding leaves. The contribution of these two enzymes to the synthesis of castor oil is discussed.

  7. Large-grain pipelining on hypercube multiprocessors

    SciTech Connect

    King, Chung-Ta; Ni, Lionel M.

    1988-01-01

    A new paradigm, called large-grain pipelining, for developing efficient parallel algorithms on distributed-memory multiprocessors, e.g., hypercube machines, is introduced. Large-grain pipelining attempts to maximize the degree of overlapping and minimize the effect of communication overhead in a multiprocessor system through macro-pipelining between the nodes. Algorithms developed through large-grain pipelining to perform matrix multiplication are presented. To model the pipelined computations, an analytic model is introduced, which takes into account both underlying architecture and algorithm behavior. Through the analytical model, important design parameters, such as data partition sizes, can be determined. Experiments were conducted on a 64-node NCUBE multiprocessor. The measured results match closely with the analyzed results, which establishes the analytic model as an integral part of algorithm design. Comparison with an algorithm which does not use large-grain pipelining also shows that large-grain pipelining is an efficient scheme for achieving a greater parallelism. 14 refs., 12 figs.

  8. Effect of the application of a casein phosphopeptide-amorphous calcium phosphate (CPP-ACP) paste and adhesive systems on bond durability of a fissure sealant.

    PubMed

    Borges, Boniek Castillo Dutra; Catelan, Anderson; Sasaki, Robson Tetsuo; Ambrosano, Gláucia Maria Bovi; Reis, André Figueiredo; Aguiar, Flávio Henrique Baggio

    2013-01-01

    This study aimed to evaluate the effect of the previous application of a casein phosphopeptide-amorphous calcium phosphate paste (MI Paste, MI) and adhesive systems on the bond durability of a fissure sealant. Ninety-eight enamel blocks were obtained from proximal surfaces of erupted third molars. Specimens were divided into 14 groups (n = 7) according to the previous application of MI (with and without) and the adhesive systems used (no adhesive system; hydrophobic resin of a three-step etch-and-rinse adhesive system; etch-and-rinse single-bottle adhesive system; all-in-one adhesive system; two-step self-etching adhesive system; additional phosphoric acid conditioning and all-in-one adhesive system; additional phosphoric acid conditioning and two-step self-etching adhesive system). A fissure sealant (Fluroshield) was applied and photoactivated for 20 s. Beams (~0.7 mm(2)) were prepared for the microtensile bond strength test, which was executed after 24 h or 6 months of water storage. Fractured specimens were analyzed by scanning electronic microscopy. Data were analyzed by two-way ANOVA with repeated measures/Tukey's test (P < 0.05). Groups that received MI application and adhesive systems presented higher means than those groups where MI was not applied. Higher frequency of cohesive failures was observed for groups with MI. Applying a CPP-ACP containing paste on enamel before adhesive systems was an effective method to increase bond durability of the sealant tested.

  9. Aqueous Molecular Dynamics Simulations of the M. tuberculosis Enoyl-ACP Reductase-NADH System and Its Complex with a Substrate Mimic or Diphenyl Ethers Inhibitors

    PubMed Central

    da Silva Lima, Camilo Henrique; de Alencastro, Ricardo Bicca; Kaiser, Carlos Roland; de Souza, Marcus Vinícius Nora; Rodrigues, Carlos Rangel; Albuquerque, Magaly Girão

    2015-01-01

    Molecular dynamics (MD) simulations of 12 aqueous systems of the NADH-dependent enoyl-ACP reductase from Mycobacterium tuberculosis (InhA) were carried out for up to 20–40 ns using the GROMACS 4.5 package. Simulations of the holoenzyme, holoenzyme-substrate, and 10 holoenzyme-inhibitor complexes were conducted in order to gain more insight about the secondary structure motifs of the InhA substrate-binding pocket. We monitored the lifetime of the main intermolecular interactions: hydrogen bonds and hydrophobic contacts. Our MD simulations demonstrate the importance of evaluating the conformational changes that occur close to the active site of the enzyme-cofactor complex before and after binding of the ligand and the influence of the water molecules. Moreover, the protein-inhibitor total steric (ELJ) and electrostatic (EC) interaction energies, related to Gly96 and Tyr158, are able to explain 80% of the biological response variance according to the best linear equation, pKi = 7.772 − 0.1885 × Gly96 + 0.0517 × Tyr158 (R2 = 0.80; n = 10), where interactions with Gly96, mainly electrostatic, increase the biological response, while those with Tyr158 decrease. These results will help to understand the structure-activity relationships and to design new and more potent anti-TB drugs. PMID:26457706

  10. Characterization of a Pseudomonas aeruginosa Fatty Acid Biosynthetic Gene Cluster: Purification of Acyl Carrier Protein (ACP) and Malonyl-Coenzyme A:ACP Transacylase (FabD)

    PubMed Central

    Kutchma, Alecksandr J.; Hoang, Tung T.; Schweizer, Herbert P.

    1999-01-01

    A DNA fragment containing the Pseudomonas aeruginosa fabD (encoding malonyl-coenzyme A [CoA]:acyl carrier protein [ACP] transacylase), fabG (encoding β-ketoacyl-ACP reductase), acpP (encoding ACP), and fabF (encoding β-ketoacyl-ACP synthase II) genes was cloned and sequenced. This fab gene cluster is delimited by the plsX (encoding a poorly understood enzyme of phospholipid metabolism) and pabC (encoding 4-amino-4-deoxychorismate lyase) genes; the fabF and pabC genes seem to be translationally coupled. The fabH gene (encoding β-ketoacyl-ACP synthase III), which in most gram-negative bacteria is located between plsX and fabD, is absent from this gene cluster. A chromosomal temperature-sensitive fabD mutant was obtained by site-directed mutagenesis that resulted in a W258Q change. A chromosomal fabF insertion mutant was generated, and the resulting mutant strain contained substantially reduced levels of cis-vaccenic acid. Multiple attempts aimed at disruption of the chromosomal fabG gene were unsuccessful. We purified FabD as a hexahistidine fusion protein (H6-FabD) and ACP in its native form via an ACP-intein-chitin binding domain fusion protein, using a novel expression and purification scheme that should be applicable to ACP from other bacteria. Matrix-assisted laser desorption–ionization spectroscopy, native polyacrylamide electrophoresis, and amino-terminal sequencing revealed that (i) most of the purified ACP was properly modified with its 4′-phosphopantetheine functional group, (ii) it was not acylated, and (iii) the amino-terminal methionine was removed. In an in vitro system, purified ACP functioned as acyl acceptor and H6-FabD exhibited malonyl-CoA:ACP transacylase activity. PMID:10464226

  11. Real-Time Multiprocessor Programming Language (RTMPL) user's manual

    NASA Technical Reports Server (NTRS)

    Arpasi, D. J.

    1985-01-01

    A real-time multiprocessor programming language (RTMPL) has been developed to provide for high-order programming of real-time simulations on systems of distributed computers. RTMPL is a structured, engineering-oriented language. The RTMPL utility supports a variety of multiprocessor configurations and types by generating assembly language programs according to user-specified targeting information. Many programming functions are assumed by the utility (e.g., data transfer and scaling) to reduce the programming chore. This manual describes RTMPL from a user's viewpoint. Source generation, applications, utility operation, and utility output are detailed. An example simulation is generated to illustrate many RTMPL features.

  12. Fault tree models for fault tolerant hypercube multiprocessors

    NASA Technical Reports Server (NTRS)

    Boyd, Mark A.; Tuazon, Jezus O.

    1991-01-01

    Three candidate fault tolerant hypercube architectures are modeled, their reliability analyses are compared, and the resulting implications of these methods of incorporating fault tolerance into hypercube multiprocessors are discussed. In the course of performing the reliability analyses, the use of HARP and fault trees in modeling sequence dependent system behaviors is demonstrated.

  13. Modified acyl-ACP desaturase

    DOEpatents

    Cahoon, E.B.; Shanklin, J.; Lindgvist, Y.; Schneider, G.

    1998-01-06

    Disclosed is a method for modifying the chain length and double bond positional specificities of a soluble plant fatty acid desaturase. More specifically, the method involves modifying amino acid contact residues in the substrate binding channel of the soluble fatty acid desaturase which contact the fatty acid. Specifically disclosed is the modification of an acyl-ACP desaturase. Amino acid contact residues which lie within the substrate binding channel are identified, and subsequently replaced with different residues to effect the modification of activity. 1 fig.

  14. A simple modern correctness condition for a space-based high-performance multiprocessor

    NASA Technical Reports Server (NTRS)

    Probst, David K.; Li, Hon F.

    1992-01-01

    A number of U.S. national programs, including space-based detection of ballistic missile launches, envisage putting significant computing power into space. Given sufficient progress in low-power VLSI, multichip-module packaging and liquid-cooling technologies, we will see design of high-performance multiprocessors for individual satellites. In very high speed implementations, performance depends critically on tolerating large latencies in interprocessor communication; without latency tolerance, performance is limited by the vastly differing time scales in processor and data-memory modules, including interconnect times. The modern approach to tolerating remote-communication cost in scalable, shared-memory multiprocessors is to use a multithreaded architecture, and alter the semantics of shared memory slightly, at the price of forcing the programmer either to reason about program correctness in a relaxed consistency model or to agree to program in a constrained style. The literature on multiprocessor correctness conditions has become increasingly complex, and sometimes confusing, which may hinder its practical application. We propose a simple modern correctness condition for a high-performance, shared-memory multiprocessor; the correctness condition is based on a simple interface between the multiprocessor architecture and a high-performance, shared-memory multiprocessor; the correctness condition is based on a simple interface between the multiprocessor architecture and the parallel programming system.

  15. Kendall Square multiprocessor: Early experiences and performance

    SciTech Connect

    Dunigan, T.H.

    1992-04-01

    Initial performance results and early experiences are reported for the Kendall Square Research multiprocessor. The basic architecture of the shared-memory multiprocessor is described, and computational and I/O performance is measured for both serial and parallel programs. Experiences in porting various applications are described.

  16. Multiprocessor computer overset grid method and apparatus

    DOEpatents

    Barnette, Daniel W.; Ober, Curtis C.

    2003-01-01

    A multiprocessor computer overset grid method and apparatus comprises associating points in each overset grid with processors and using mapped interpolation transformations to communicate intermediate values between processors assigned base and target points of the interpolation transformations. The method allows a multiprocessor computer to operate with effective load balance on overset grid applications.

  17. The Drosophila melanogaster seminal fluid protein Acp62F is a protease inhibitor that is toxic upon ectopic expression.

    PubMed Central

    Lung, Oliver; Tram, Uyen; Finnerty, Casey M; Eipper-Mains, Marcie A; Kalb, John M; Wolfner, Mariana F

    2002-01-01

    Drosophila melanogaster seminal fluid proteins stimulate sperm storage and egg laying in the mated female but also cause a reduction in her life span. We report here that of eight Drosophila seminal fluid proteins (Acps) and one non-Acp tested, only Acp62F is toxic when ectopically expressed. Toxicity to preadult male or female Drosophila occurs upon one exposure, whereas multiple exposures are needed for toxicity to adult female flies. Of the Acp62F received by females during mating, approximately 10% enters the circulatory system while approximately 90% remains in the reproductive tract. We show that in the reproductive tract, Acp62F localizes to the lumen of the uterus and the female's sperm storage organs. Analysis of Acp62F's sequence, and biochemical assays, reveals that it encodes a trypsin inhibitor with sequence and structural similarities to extracellular serine protease inhibitors from the nematode Ascaris. In light of previous results demonstrating entry of Acp62F into the mated female's hemolymph, we propose that Acp62F is a candidate for a molecule to contribute to the Acp-dependent decrease in female life span. We propose that Acp62F's protease inhibitor activity exerts positive protective functions in the mated female's reproductive tract but that entry of a small amount of this protein into the female's hemolymph could contribute to the cost of mating. PMID:11805057

  18. Modelling parallel programs and multiprocessor architectures with AXE

    NASA Technical Reports Server (NTRS)

    Yan, Jerry C.; Fineman, Charles E.

    1991-01-01

    AXE, An Experimental Environment for Parallel Systems, was designed to model and simulate for parallel systems at the process level. It provides an integrated environment for specifying computation models, multiprocessor architectures, data collection, and performance visualization. AXE is being used at NASA-Ames for developing resource management strategies, parallel problem formulation, multiprocessor architectures, and operating system issues related to the High Performance Computing and Communications Program. AXE's simple, structured user-interface enables the user to model parallel programs and machines precisely and efficiently. Its quick turn-around time keeps the user interested and productive. AXE models multicomputers. The user may easily modify various architectural parameters including the number of sites, connection topologies, and overhead for operating system activities. Parallel computations in AXE are represented as collections of autonomous computing objects known as players. Their use and behavior is described. Performance data of the multiprocessor model can be observed on a color screen. These include CPU and message routing bottlenecks, and the dynamic status of the software.

  19. ATAMM enhancement and multiprocessor performance evaluation

    NASA Technical Reports Server (NTRS)

    Stoughton, John W.; Mielke, Roland R.; Som, Sukhamoy; Obando, Rodrigo; Malekpour, Mahyar R.; Jones, Robert L., III; Mandala, Brij Mohan V.

    1991-01-01

    ATAMM (Algorithm To Architecture Mapping Model) enhancement and multiprocessor performance evaluation is discussed. The following topics are included: the ATAMM model; ATAMM enhancement; ADM (Advanced Development Model) implementation of ATAMM; and ATAMM support tools.

  20. Modeling and measurement of fault-tolerant multiprocessors

    NASA Technical Reports Server (NTRS)

    Shin, K. G.; Woodbury, M. H.; Lee, Y. H.

    1985-01-01

    The workload effects on computer performance are addressed first for a highly reliable unibus multiprocessor used in real-time control. As an approach to studing these effects, a modified Stochastic Petri Net (SPN) is used to describe the synchronous operation of the multiprocessor system. From this model the vital components affecting performance can be determined. However, because of the complexity in solving the modified SPN, a simpler model, i.e., a closed priority queuing network, is constructed that represents the same critical aspects. The use of this model for a specific application requires the partitioning of the workload into job classes. It is shown that the steady state solution of the queuing model directly produces useful results. The use of this model in evaluating an existing system, the Fault Tolerant Multiprocessor (FTMP) at the NASA AIRLAB, is outlined with some experimental results. Also addressed is the technique of measuring fault latency, an important microscopic system parameter. Most related works have assumed no or a negligible fault latency and then performed approximate analyses. To eliminate this deficiency, a new methodology for indirectly measuring fault latency is presented.

  1. Optimal eigenvalue computation on a mesh multiprocessor

    SciTech Connect

    Crivelli, S.; Jessup, E. R.

    1993-01-01

    In this paper, we compare the costs of computing a single eigenvalue of a symmetric tridiagonal matrix by serial bisection and by parallel multisection on a mesh multiprocessor. We show how the optimal method for computing one eigenvalue depends on such variables as the matrix order and parameters of the multiprocessor used. We present the results of experiments on the 520-processor Intel Touchstone Delta to support our analysis.

  2. A specific acyl-ACP thioesterase implicated in medium-chain fatty acid production in immature cotyledons of Umbellularia californica.

    PubMed

    Pollard, M R; Anderson, L; Fan, C; Hawkins, D J; Davies, H M

    1991-02-01

    Umbellularia californica (California Bay) seeds accumulate 10:0 and 12:0 as principal reserve fatty acyl groups. An in vitro fatty acid synthesis system from the developing cotyledons produces chiefly 10:0 and 12:0, in approximately the same proportions as the intact tissue. The kinetics of acyl thioester and free fatty acid formation in this system suggest that a medium-chain specific acyl-acyl-carrier protein (ACP) hydrolysis mechanism is responsible for the preponderance of medium-chain products. A crude extract of the developing cotyledons exhibits hydrolytic activity toward acyl-ACPs, with marked preference for 12:0-ACP and 18:1-ACP in the test series 6:0, 8:0, 10:0, 11:0, 12:0, 14:0, 16:0, and 18:1-ACPs. Partial purification of the 12:0-ACP hydrolytic activity has resulted in its separation from the 18:1-ACP hydrolase(s) and the 12:0-coenzyme A hydrolase(s) that are also present, thereby demonstrating its specificity for the 12-carbon acyl chain length and the ACP derivative. During cotyledon development, as the proportion of medium-chain to other fatty acyl groups increases, the extractable yield of this activity also increases substantially. Collectively these results suggest a role for this 12-ACP thioesterase in medium-chain production in vivo.

  3. 26 CFR 1.401(m)-2 - ACP test.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 26 Internal Revenue 5 2013-04-01 2013-04-01 false ACP test. 1.401(m)-2 Section 1.401(m)-2 Internal... TAXES (CONTINUED) Pension, Profit-Sharing, Stock Bonus Plans, Etc. § 1.401(m)-2 ACP test. (a) Actual contribution percentage (ACP) test—(1) In general—(i) ACP test formula. A plan satisfies the ACP test for...

  4. FTMP (Fault Tolerant Multiprocessor) programmer's manual

    NASA Technical Reports Server (NTRS)

    Feather, F. E.; Liceaga, C. A.; Padilla, P. A.

    1986-01-01

    The Fault Tolerant Multiprocessor (FTMP) computer system was constructed using the Rockwell/Collins CAPS-6 processor. It is installed in the Avionics Integration Research Laboratory (AIRLAB) of NASA Langley Research Center. It is hosted by AIRLAB's System 10, a VAX 11/750, for the loading of programs and experimentation. The FTMP support software includes a cross compiler for a high level language called Automated Engineering Design (AED) System, an assembler for the CAPS-6 processor assembly language, and a linker. Access to this support software is through an automated remote access facility on the VAX which relieves the user of the burden of learning how to use the IBM 4381. This manual is a compilation of information about the FTMP support environment. It explains the FTMP software and support environment along many of the finer points of running programs on FTMP. This will be helpful to the researcher trying to run an experiment on FTMP and even to the person probing FTMP with fault injections. Much of the information in this manual can be found in other sources; we are only attempting to bring together the basic points in a single source. If the reader should need points clarified, there is a list of support documentation in the back of this manual.

  5. Iterative algorithms for tridiagonal matrices on a WSI-multiprocessor

    SciTech Connect

    Gajski, D.D.; Sameh, A.H.; Wisniewski, J.A.

    1982-01-01

    With the rapid advances in semiconductor technology, the construction of Wafer Scale Integration (WSI)-multiprocessors consisting of a large number of processors is now feasible. We illustrate the implementation of some basic linear algebra algorithms on such multiprocessors.

  6. Multiprocessor architecture: Synthesis and evaluation

    NASA Technical Reports Server (NTRS)

    Standley, Hilda M.

    1990-01-01

    Multiprocessor computed architecture evaluation for structural computations is the focus of the research effort described. Results obtained are expected to lead to more efficient use of existing architectures and to suggest designs for new, application specific, architectures. The brief descriptions given outline a number of related efforts directed toward this purpose. The difficulty is analyzing an existing architecture or in designing a new computer architecture lies in the fact that the performance of a particular architecture, within the context of a given application, is determined by a number of factors. These include, but are not limited to, the efficiency of the computation algorithm, the programming language and support environment, the quality of the program written in the programming language, the multiplicity of the processing elements, the characteristics of the individual processing elements, the interconnection network connecting processors and non-local memories, and the shared memory organization covering the spectrum from no shared memory (all local memory) to one global access memory. These performance determiners may be loosely classified as being software or hardware related. This distinction is not clear or even appropriate in many cases. The effect of the choice of algorithm is ignored by assuming that the algorithm is specified as given. Effort directed toward the removal of the effect of the programming language and program resulted in the design of a high-level parallel programming language. Two characteristics of the fundamental structure of the architecture (memory organization and interconnection network) are examined.

  7. Validation of a fault-tolerant multiprocessor: Baseline experiments and workload implementation

    NASA Technical Reports Server (NTRS)

    Feather, Frank; Siewiorek, Daniel; Segall, Zary

    1985-01-01

    In the future, aircraft must employ highly reliable multiprocessors in order to achieve flight safety. Such computers must be experimentally validated before they are deployed. This project outlines a methodology for validating reliable multiprocessors. The methodology begins with baseline experiments, which tests a single phenomenon. As experiments progress, tools for performance testing are developed. The methodology is used, in part, on the Fault Tolerant Multiprocessor (FTMP) at NASA-Langley's AIRLAB facility. Experiments are designed to evaluate the fault-free performance of the system. Presented are the results of interrupt baseline experiments performed on FTMP. Interrupt causing exception conditions were tested, and several were found to have unimplemented interrupt handling software while one had an unimplemented interrupt vector. A synthetic workload model for realtime multiprocessors is then developed as an application level performance analysis tool. Details of the workload implementation and calibration are presented. Both the experimental methodology and the synthetic workload model are general enough to be applicable to reliable multiprocessors beside FTMP.

  8. Development and evaluation of a fault-tolerant multiprocessor (FTMP) computer. Volume 1: FTMP principles of operation

    NASA Technical Reports Server (NTRS)

    Smith, T. B., Jr.; Lala, J. H.

    1983-01-01

    The basic organization of the fault tolerant multiprocessor, (FTMP) is that of a general purpose homogeneous multiprocessor. Three processors operate on a shared system (memory and I/O) bus. Replication and tight synchronization of all elements and hardware voting is employed to detect and correct any single fault. Reconfiguration is then employed to repair a fault. Multiple faults may be tolerated as a sequence of single faults with repair between fault occurrences.

  9. 7 CFR 701.44 - Agricultural Conservation Program (ACP) contracts.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 7 2013-01-01 2013-01-01 false Agricultural Conservation Program (ACP) contracts. 701... AGENCY, DEPARTMENT OF AGRICULTURE AGRICULTURAL CONSERVATION PROGRAM EMERGENCY CONSERVATION PROGRAM... General § 701.44 Agricultural Conservation Program (ACP) contracts. Contracts for ACP that are, or...

  10. 7 CFR 701.44 - Agricultural Conservation Program (ACP) contracts.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 7 2011-01-01 2011-01-01 false Agricultural Conservation Program (ACP) contracts. 701... AGENCY, DEPARTMENT OF AGRICULTURE AGRICULTURAL CONSERVATION PROGRAM EMERGENCY CONSERVATION PROGRAM... General § 701.44 Agricultural Conservation Program (ACP) contracts. Contracts for ACP that are, or...

  11. 7 CFR 701.44 - Agricultural Conservation Program (ACP) contracts.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 7 2012-01-01 2012-01-01 false Agricultural Conservation Program (ACP) contracts. 701... AGENCY, DEPARTMENT OF AGRICULTURE AGRICULTURAL CONSERVATION PROGRAM EMERGENCY CONSERVATION PROGRAM... General § 701.44 Agricultural Conservation Program (ACP) contracts. Contracts for ACP that are, or...

  12. 7 CFR 701.44 - Agricultural Conservation Program (ACP) contracts.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 7 2014-01-01 2014-01-01 false Agricultural Conservation Program (ACP) contracts. 701... AGENCY, DEPARTMENT OF AGRICULTURE AGRICULTURAL CONSERVATION PROGRAM EMERGENCY CONSERVATION PROGRAM... General § 701.44 Agricultural Conservation Program (ACP) contracts. Contracts for ACP that are, or...

  13. Simulating an aerospace multiprocessor. [for space guidance computers

    NASA Technical Reports Server (NTRS)

    Mallach, E. G.

    1976-01-01

    The paper describes a simulator which was used to evaluate the architecture of an aerospace multiprocessor. The simulator models interactions among the processors, memories, the central data bus, and a possible 'job stack'. Special features of the simulator are discussed, including the use of explicitly coded and individually distinguishable 'job models' instead of a statistically defined 'job mix' and a specialized Job Model Definition Language to automate the detailed coding of the models. Some results are presented which show that when the simulator was employed in conjunction with queuing theory and Markov-process analysis, more insight into system behavior was obtained than would have been with any one technique alone.

  14. A combined PLC and CPU approach to multiprocessor control

    SciTech Connect

    Harris, J.J.; Broesch, J.D.; Coon, R.M.

    1995-10-01

    A sophisticated multiprocessor control system has been developed for use in the E-Power Supply System Integrated Control (EPSSIC) on the DIII-D tokamak. EPSSIC provides control and interlocks for the ohmic heating coil power supply and its associated systems. Of particular interest is the architecture of this system: both a Programmable Logic Controller (PLC) and a Central Processor Unit (CPU) have been combined on a standard VME bus. The PLC and CPU input and output signals are routed through signal conditioning modules, which provide the necessary voltage and ground isolation. Additionally these modules adapt the signal levels to that of the VME I/O boards. One set of I/O signals is shared between the two processors. The resulting multiprocessor system provides a number of advantages: redundant operation for mission critical situations, flexible communications using conventional TCP/IP protocols, the simplicity of ladder logic programming for the majority of the control code, and an easily maintained and expandable non-proprietary system.

  15. Instrumentation, performance visualization, and debugging tools for multiprocessors

    NASA Technical Reports Server (NTRS)

    Yan, Jerry C.; Fineman, Charles E.; Hontalas, Philip J.

    1991-01-01

    The need for computing power has forced a migration from serial computation on a single processor to parallel processing on multiprocessor architectures. However, without effective means to monitor (and visualize) program execution, debugging, and tuning parallel programs becomes intractably difficult as program complexity increases with the number of processors. Research on performance evaluation tools for multiprocessors is being carried out at ARC. Besides investigating new techniques for instrumenting, monitoring, and presenting the state of parallel program execution in a coherent and user-friendly manner, prototypes of software tools are being incorporated into the run-time environments of various hardware testbeds to evaluate their impact on user productivity. Our current tool set, the Ames Instrumentation Systems (AIMS), incorporates features from various software systems developed in academia and industry. The execution of FORTRAN programs on the Intel iPSC/860 can be automatically instrumented and monitored. Performance data collected in this manner can be displayed graphically on workstations supporting X-Windows. We have successfully compared various parallel algorithms for computational fluid dynamics (CFD) applications in collaboration with scientists from the Numerical Aerodynamic Simulation Systems Division. By performing these comparisons, we show that performance monitors and debuggers such as AIMS are practical and can illuminate the complex dynamics that occur within parallel programs.

  16. SIFT - Multiprocessor architecture for Software Implemented Fault Tolerance flight control and avionics computers

    NASA Technical Reports Server (NTRS)

    Forman, P.; Moses, K.

    1979-01-01

    A brief description of a SIFT (Software Implemented Fault Tolerance) Flight Control Computer with emphasis on implementation is presented. A multiprocessor system that relies on software-implemented fault detection and reconfiguration algorithms is described. A high level reliability and fault tolerance is achieved by the replication of computing tasks among processing units.

  17. Evaluation of the impact chip multiprocessors have on SNL application performance.

    SciTech Connect

    Doerfler, Douglas W.

    2009-10-01

    This report describes trans-organizational efforts to investigate the impact of chip multiprocessors (CMPs) on the performance of important Sandia application codes. The impact of CMPs on the performance and applicability of Sandia's system software was also investigated. The goal of the investigation was to make algorithmic and architectural recommendations for next generation platform acquisitions.

  18. Efficient partitioning and assignment on programs for multiprocessor execution

    NASA Technical Reports Server (NTRS)

    Standley, Hilda M.

    1993-01-01

    The general problem studied is that of segmenting or partitioning programs for distribution across a multiprocessor system. Efficient partitioning and the assignment of program elements are of great importance since the time consumed in this overhead activity may easily dominate the computation, effectively eliminating any gains made by the use of the parallelism. In this study, the partitioning of sequentially structured programs (written in FORTRAN) is evaluated. Heuristics, developed for similar applications are examined. Finally, a model for queueing networks with finite queues is developed which may be used to analyze multiprocessor system architectures with a shared memory approach to the problem of partitioning. The properties of sequentially written programs form obstacles to large scale (at the procedure or subroutine level) parallelization. Data dependencies of even the minutest nature, reflecting the sequential development of the program, severely limit parallelism. The design of heuristic algorithms is tied to the experience gained in the parallel splitting. Parallelism obtained through the physical separation of data has seen some success, especially at the data element level. Data parallelism on a grander scale requires models that accurately reflect the effects of blocking caused by finite queues. A model for the approximation of the performance of finite queueing networks is developed. This model makes use of the decomposition approach combined with the efficiency of product form solutions.

  19. Scalable Multiprocessor for High-Speed Computing in Space

    NASA Technical Reports Server (NTRS)

    Lux, James; Lang, Minh; Nishimoto, Kouji; Clark, Douglas; Stosic, Dorothy; Bachmann, Alex; Wilkinson, William; Steffke, Richard

    2004-01-01

    A report discusses the continuing development of a scalable multiprocessor computing system for hard real-time applications aboard a spacecraft. "Hard realtime applications" signifies applications, like real-time radar signal processing, in which the data to be processed are generated at "hundreds" of pulses per second, each pulse "requiring" millions of arithmetic operations. In these applications, the digital processors must be tightly integrated with analog instrumentation (e.g., radar equipment), and data input/output must be synchronized with analog instrumentation, controlled to within fractions of a microsecond. The scalable multiprocessor is a cluster of identical commercial-off-the-shelf generic DSP (digital-signal-processing) computers plus generic interface circuits, including analog-to-digital converters, all controlled by software. The processors are computers interconnected by high-speed serial links. Performance can be increased by adding hardware modules and correspondingly modifying the software. Work is distributed among the processors in a parallel or pipeline fashion by means of a flexible master/slave control and timing scheme. Each processor operates under its own local clock; synchronization is achieved by broadcasting master time signals to all the processors, which compute offsets between the master clock and their local clocks.

  20. 26 CFR 1.401(m)-2 - ACP test.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 26 Internal Revenue 5 2011-04-01 2011-04-01 false ACP test. 1.401(m)-2 Section 1.401(m)-2 Internal... TAXES (CONTINUED) Pension, Profit-Sharing, Stock Bonus Plans, Etc. § 1.401(m)-2 ACP test. (a) Actual... under paragraph (a)(1) of this section either— (A) Pursuant to section 401(m)(5)(C), the ACP test...

  1. Discovery and Characterization of the 3-Hydroxyacyl-ACP Dehydratase Component of the Plant Mitochondrial Fatty Acid Synthase System1[OPEN

    PubMed Central

    Okazaki, Yozo; Lithio, Andrew; Jin, Huanan

    2017-01-01

    We report the characterization of the Arabidopsis (Arabidopsis thaliana) 3-hydroxyacyl-acyl carrier protein dehydratase (mtHD) component of the mitochondrial fatty acid synthase (mtFAS) system, encoded by AT5G60335. The mitochondrial localization and catalytic capability of mtHD were demonstrated with a green fluorescent protein transgenesis experiment and by in vivo complementation and in vitro enzymatic assays. RNA interference (RNAi) knockdown lines with reduced mtHD expression exhibit traits typically associated with mtFAS mutants, namely a miniaturized morphological appearance, reduced lipoylation of lipoylated proteins, and altered metabolomes consistent with the reduced catalytic activity of lipoylated enzymes. These alterations are reversed when mthd-rnai mutant plants are grown in a 1% CO2 atmosphere, indicating the link between mtFAS and photorespiratory deficiency due to the reduced lipoylation of glycine decarboxylase. In vivo biochemical feeding experiments illustrate that sucrose and glycolate are the metabolic modulators that mediate the alterations in morphology and lipid accumulation. In addition, both mthd-rnai and mtkas mutants exhibit reduced accumulation of 3-hydroxytetradecanoic acid (i.e. a hallmark of lipid A-like molecules) and abnormal chloroplastic starch granules; these changes are not reversible by the 1% CO2 atmosphere, demonstrating two novel mtFAS functions that are independent of photorespiration. Finally, RNA sequencing analysis revealed that mthd-rnai and mtkas mutants are nearly equivalent to each other in altering the transcriptome, and these analyses further identified genes whose expression is affected by a functional mtFAS system but independent of photorespiratory deficiency. These data demonstrate the nonredundant nature of the mtFAS system, which contributes unique lipid components needed to support plant cell structure and metabolism. PMID:28202596

  2. An Analysis of an Improved Bus-Based Multiprocessor Architecture

    NASA Technical Reports Server (NTRS)

    Ricks, Kenneth G.; Wells, B. Earl

    1998-01-01

    This paper analyses the effectiveness of a hybrid multiprocessing/multicomputing architecture that is based upon a single-board-computer multiprocessor (SBCM) architecture. Based upon empirical analysis using discrete event simulations and Monte Carlo techniques, this hybrid architecture, called the enhanced single-board-computer multiprocessor (ESBCM), is shown to have improved performance and scalability characteristics over current SBCM designs.

  3. A robot arm simulation with a shared memory multiprocessor machine

    NASA Technical Reports Server (NTRS)

    Kim, Sung-Soo; Chuang, Li-Ping

    1989-01-01

    A parallel processing scheme for a single chain robot arm is presented for high speed computation on a shared memory multiprocessor. A recursive formulation that is derived from a virtual work form of the d'Alembert equations of motion is utilized for robot arm dynamics. A joint drive system that consists of a motor rotor and gears is included in the arm dynamics model, in order to take into account gyroscopic effects due to the spinning of the rotor. The fine grain parallelism of mechanical and control subsystem models is exploited, based on independent computation associated with bodies, joint drive systems, and controllers. Efficiency and effectiveness of the parallel scheme are demonstrated through simulations of a telerobotic manipulator arm. Two different mechanical subsystem models, i.e., with and without gyroscopic effects, are compared, to show the trade-off between efficiency and accuracy.

  4. Multiprocessor switch with selective pairing

    DOEpatents

    Gara, Alan; Gschwind, Michael K; Salapura, Valentina

    2014-03-11

    System, method and computer program product for a multiprocessing system to offer selective pairing of processor cores for increased processing reliability. A selective pairing facility is provided that selectively connects, i.e., pairs, multiple microprocessor or processor cores to provide one highly reliable thread (or thread group). Each paired microprocessor or processor cores that provide one highly reliable thread for high-reliability connect with a system components such as a memory "nest" (or memory hierarchy), an optional system controller, and optional interrupt controller, optional I/O or peripheral devices, etc. The memory nest is attached to a selective pairing facility via a switch or a bus

  5. Safe and Efficient Support for Embeded Multi-Processors in ADA

    NASA Astrophysics Data System (ADS)

    Ruiz, Jose F.

    2010-08-01

    New software demands increasing processing power, and multi-processor platforms are spreading as the answer to achieve the required performance. Embedded real-time systems are also subject to this trend, but in the case of real-time mission-critical systems, the properties of reliability, predictability and analyzability are also paramount. The Ada 2005 language defined a subset of its tasking model, the Ravenscar profile, that provides the basis for the implementation of deterministic and time analyzable applications on top of a streamlined run-time system. This Ravenscar tasking profile, originally designed for single processors, has proven remarkably useful for modelling verifiable real-time single-processor systems. This paper proposes a simple extension to the Ravenscar profile to support multi-processor systems using a fully partitioned approach. The implementation of this scheme is simple, and it can be used to develop applications amenable to schedulability analysis.

  6. Developmental induction, purification, and further characterization of 12:0-ACP thioesterase from immature cotyledons of Umbellularia californica.

    PubMed

    Davies, H M; Anderson, L; Fan, C; Hawkins, D J

    1991-10-01

    The fatty acyl content of developing cotyledons of Umbellularia californica (California Bay) changes from a long-chain composition to a predominance of 10:0 and 12:0 in just 4-5 days at the beginning of an approximately 100-day period of medium-chain deposition. This striking change occurs at the earliest appearance of 12:0-acyl-carrier protein (ACP) thioesterase activity. The coincidence of these rapid events is consistent with the hypothesis that the enzyme plays a major role in medium-chain biosynthesis. The 12:0-ACP thioesterase has been substantially purified; enzyme activity consistently comigrates in chromatographic and electrophoretic systems with a protein or pair of proteins having an apparent molecular weight of approximately 34 kDa. A native molecular weight of approximately 42 kDa has been estimated by gel filtration chromatography, suggesting that the enzyme is a monomer. Affinity chromatography on immobilized ACP is a critical step in the purification procedure, and resolves the 12:0-ACP and 18:1-ACP thioesterases sufficiently to confirm that the medium-chain enzyme has negligible action on 18:1-ACP.

  7. MPF: A portable message passing facility for shared memory multiprocessors

    NASA Technical Reports Server (NTRS)

    Malony, Allen D.; Reed, Daniel A.; Mcguire, Patrick J.

    1987-01-01

    The design, implementation, and performance evaluation of a message passing facility (MPF) for shared memory multiprocessors are presented. The MPF is based on a message passing model conceptually similar to conversations. Participants (parallel processors) can enter or leave a conversation at any time. The message passing primitives for this model are implemented as a portable library of C function calls. The MPF is currently operational on a Sequent Balance 21000, and several parallel applications were developed and tested. Several simple benchmark programs are presented to establish interprocess communication performance for common patterns of interprocess communication. Finally, performance figures are presented for two parallel applications, linear systems solution, and iterative solution of partial differential equations.

  8. Testing and operating a multiprocessor chip with processor redundancy

    DOEpatents

    Bellofatto, Ralph E; Douskey, Steven M; Haring, Rudolf A; McManus, Moyra K; Ohmacht, Martin; Schmunkamp, Dietmar; Sugavanam, Krishnan; Weatherford, Bryan J

    2014-10-21

    A system and method for improving the yield rate of a multiprocessor semiconductor chip that includes primary processor cores and one or more redundant processor cores. A first tester conducts a first test on one or more processor cores, and encodes results of the first test in an on-chip non-volatile memory. A second tester conducts a second test on the processor cores, and encodes results of the second test in an external non-volatile storage device. An override bit of a multiplexer is set if a processor core fails the second test. In response to the override bit, the multiplexer selects a physical-to-logical mapping of processor IDs according to one of: the encoded results in the memory device or the encoded results in the external storage device. On-chip logic configures the processor cores according to the selected physical-to-logical mapping.

  9. The C.mmp Multiprocessor

    DTIC Science & Technology

    1978-10-27

    minicomputers connected to a large shared memory through a central crosspoint switch . The system was constructed beginning in 1971, and for several years has...i 2.1. The Processor -Memory Switch 4 %_1ŕ 2.2. Memory Mapping and the Relocation Unit 6 2.3. Caches 8 2.4. Processor Extensions 8 2.4.1. Address...The Present C.mmp Configuration 12 3.1. Processors 12 3.2. Memory 15 3.3. Switch and IP Bus 15 3.4. Peripheral Devices 15 3.5. Links to Other

  10. Introducing an Absolute Cavity Pyrgeometer (ACP) for Improving the Atmospheric Longwave Irradiance Measurement (Poster)

    SciTech Connect

    Reda, I.; Stoffel, T.

    2012-03-01

    Advancing climate change research requires accurate and traceable measurement of the atmospheric longwave irradiance. Current measurement capabilities are limited to an estimated uncertainty of larger than +/- 4 W/m2 using the interim World Infrared Standard Group (WISG). WISG is traceable to the Systeme international d'unites (SI) through blackbody calibrations. An Absolute Cavity Pyrgeometer (ACP) is being developed to measure absolute outdoor longwave irradiance with traceability to SI using the temperature scale (ITS-90) and the sky as the reference source, instead of a blackbody. The ACP was designed by NREL and optically characterized by the National Institute of Standards and Technology (NIST). Under clear-sky and stable conditions, the responsivity of the ACP is determined by lowering the temperature of the cavity and calculating the rate of change of the thermopile output voltage versus the changing net irradiance. The absolute atmospheric longwave irradiance is then calculated with an uncertainty of +/- 3.96 W/m2 with traceability to SI. The measured irradiance by the ACP was compared with the irradiance measured by two pyrgeometers calibrated by the World Radiation Center with traceability to the WISG.

  11. RTMPL: A structured programming and documentation utility for real-time multiprocessor simulations

    NASA Technical Reports Server (NTRS)

    Arpasi, D. J.

    1984-01-01

    The NASA Lewis Research Center is developing and evaluating experimental hardware and software systems to help meet future needs for real time simulations of air-breathing propulsion systems. The Real Time Multiprocessor Simulator (RTMPS) project is aimed at developing a prototype simulator system that uses multiple microprocessors to achieve the desired computing speed and accuracy at relatively low cost. Software utilities are being developed to provide engineering-level programming and interactive operation of the simulator. Two major software development efforts were undertaken in the RTMPS project. A real time multiprocessor operating system was developed to provide for interactive operation of the simulator. The second effort was aimed at developing a structured, high-level, engineering-oriented programming language and translator that would facilitate the programming of the simulator. The Real Time Multiprocessor Programming Language (RTMPL) allows the user to describe simulation tasks for each processor in a straight-forward, structured manner. The RTMPL utility acts as an assembly language programmer, translating the high-level simulation description into time-efficient assembly language code for the processors. The utility sets up all of the interfaces between the simulator hardware, firmware, and operating system.

  12. Crystal structure of FabZ-ACP complex reveals a dynamic seesaw-like catalytic mechanism of dehydratase in fatty acid biosynthesis.

    PubMed

    Zhang, Lin; Xiao, Jianfeng; Xu, Jianrong; Fu, Tianran; Cao, Zhiwei; Zhu, Liang; Chen, Hong-Zhuan; Shen, Xu; Jiang, Hualiang; Zhang, Liang

    2016-12-01

    Fatty acid biosynthesis (FAS) is a vital process in cells. Fatty acids are essential for cell assembly and cellular metabolism. Abnormal FAS directly correlates with cell growth delay and human diseases, such as metabolic syndromes and various cancers. The FAS system utilizes an acyl carrier protein (ACP) as a transporter to stabilize and shuttle the growing fatty acid chain throughout enzymatic modules for stepwise catalysis. Studying the interactions between enzymatic modules and ACP is, therefore, critical for understanding the biological function of the FAS system. However, the information remains unclear due to the high flexibility of ACP and its weak interaction with enzymatic modules. We present here a 2.55 Å crystal structure of type II FAS dehydratase FabZ in complex with holo-ACP, which exhibits a highly symmetrical FabZ hexamer-ACP3 stoichiometry with each ACP binding to a FabZ dimer subunit. Further structural analysis, together with biophysical and computational results, reveals a novel dynamic seesaw-like ACP binding and catalysis mechanism for the dehydratase module in the FAS system, which is regulated by a critical gatekeeper residue (Tyr100 in FabZ) that manipulates the movements of the β-sheet layer. These findings improve the general understanding of the dehydration process in the FAS system and will potentially facilitate drug and therapeutic design for diseases associated with abnormalities in FAS.

  13. Crystal structure of FabZ-ACP complex reveals a dynamic seesaw-like catalytic mechanism of dehydratase in fatty acid biosynthesis

    PubMed Central

    Zhang, Lin; Xiao, Jianfeng; Xu, Jianrong; Fu, Tianran; Cao, Zhiwei; Zhu, Liang; Chen, Hong-Zhuan; Shen, Xu; Jiang, Hualiang; Zhang, Liang

    2016-01-01

    Fatty acid biosynthesis (FAS) is a vital process in cells. Fatty acids are essential for cell assembly and cellular metabolism. Abnormal FAS directly correlates with cell growth delay and human diseases, such as metabolic syndromes and various cancers. The FAS system utilizes an acyl carrier protein (ACP) as a transporter to stabilize and shuttle the growing fatty acid chain throughout enzymatic modules for stepwise catalysis. Studying the interactions between enzymatic modules and ACP is, therefore, critical for understanding the biological function of the FAS system. However, the information remains unclear due to the high flexibility of ACP and its weak interaction with enzymatic modules. We present here a 2.55 Å crystal structure of type II FAS dehydratase FabZ in complex with holo-ACP, which exhibits a highly symmetrical FabZ hexamer-ACP3 stoichiometry with each ACP binding to a FabZ dimer subunit. Further structural analysis, together with biophysical and computational results, reveals a novel dynamic seesaw-like ACP binding and catalysis mechanism for the dehydratase module in the FAS system, which is regulated by a critical gatekeeper residue (Tyr100 in FabZ) that manipulates the movements of the β-sheet layer. These findings improve the general understanding of the dehydration process in the FAS system and will potentially facilitate drug and therapeutic design for diseases associated with abnormalities in FAS. PMID:27874013

  14. Techniques for Improving the Performance of Sparse Matrix Factorization on Multiprocessor Workstations

    DTIC Science & Technology

    1990-06-01

    DATES COVERED 4. TITLE AND SUBTITLE S. FUNDING NUMBERS Techniques for Improving the Performance of Sparse Matrix 87-K-0828 Factorization on...ABSTRACT (Maximum 200 words) Abstract - this paper vk Ioo6at the problem of factoring large sparse systems of equations on high-performance multiprocessor... factorization codes achieve only a small fraction of this potential. A major limiting factor is the cost of memory accesses performed during the factorization

  15. Identification of Genes Required for Secretion of the Francisella Oxidative Burst-Inhibiting Acid Phosphatase AcpA

    PubMed Central

    Hoang, Ky Van; Chen, Carolyn G.; Koopman, Jacob; Moshiri, Jasmine; Adcox, Haley E.; Gunn, John S.

    2016-01-01

    Francisella tularensis is a Tier 1 bioterror threat and the intracellular pathogen responsible for tularemia in humans and animals. Upon entry into the host, Francisella uses multiple mechanisms to evade killing. Our previous studies have shown that after entering its primary cellular host, the macrophage, Francisella immediately suppresses the oxidative burst by secreting a series of acid phosphatases including AcpA-B-C and HapA, thereby evading the innate immune response of the macrophage and enhancing survival and further infection. However, the mechanism of acid phosphatase secretion by Francisella is still unknown. In this study, we screened for genes required for AcpA secretion in Francisella. We initially demonstrated that the known secretion systems, the putative Francisella-pathogenicity island (FPI)-encoded Type VI secretion system and the Type IV pili, do not secrete AcpA. Using random transposon mutagenesis in conjunction with ELISA, Western blotting and acid phosphatase enzymatic assays, a transposon library of 5450 mutants was screened for strains with a minimum 1.5-fold decrease in secreted (culture supernatant) AcpA, but no defect in cytosolic AcpA. Three mutants with decreased supernatant AcpA were identified. The transposon insertion sites of these mutants were revealed by direct genomic sequencing or inverse-PCR and sequencing. One of these mutants has a severe defect in AcpA secretion (at least 85% decrease) and is a predicted hypothetical inner membrane protein. Interestingly, this mutant also affected the secretion of the FPI-encoded protein, VgrG. Thus, this screen identified novel protein secretion factors involved in the subversion of host defenses. PMID:27199935

  16. Vectorization of a multiprocessor multifrontal code

    SciTech Connect

    Amestoy, P.R. ); Duff, I.S. )

    1989-01-01

    The authors describe design changes that enhance the vectorization of a multiprocessor version of a multifrontal code for the direct solution of large sparse sets of linear equations. These changes employ techniques used with success in full Gaussian elimination and are based on the use of matrix-vector and matrix-matrix kernels as implemented in the Level 2 and Level 3 BLAS. They illustrate the performance of the improved code by runs on the IBM 3090/VF, the ETA-10P, and the CRAY-2. Although their experiments are principally on a single processor of these machines, they briefly consider the influence of multiprocessing. Speedup factors of more than 11 are obtained, and the modified code performs at over 200 MFLOPS on standard structures problems on one processor of the CRAY-2.

  17. The Interactions of CPP–ACP with Saliva

    PubMed Central

    Huq, Noorjahan Laila; Myroforidis, Helen; Cross, Keith J.; Stanton, David P.; Veith, Paul D.; Ward, Brent R.; Reynolds, Eric C.

    2016-01-01

    The repair of early dental caries lesions has been demonstrated by the application of the remineralisation technology based on casein phosphopeptide-stabilised amorphous calcium phosphate complexes (CPP–ACP). These complexes consist of an amorphous calcium phosphate mineral phase stabilised and encapsulated by the self-assembly of milk-derived phosphopeptides. During topical application of CPP–ACP complexes in the oral cavity, the CPP encounters the enamel pellicle consisting of salivary proteins and peptides. However the interactions of the CPP with the enamel salivary pellicle are not known. The studies presented here reveal that the predominant peptides of CPP–ACP complexes do interact with specific salivary proteins and peptides of the enamel pellicle, and provide a mechanism by which the CPP–ACP complexes are localised at the tooth surface to promote remineralisation. PMID:27294918

  18. Dynamic power management for UML modeled applications on multiprocessor SoC

    NASA Astrophysics Data System (ADS)

    Kukkala, Petri; Arpinen, Tero; Setälä, Mikko; Hännikäinen, Marko; Hämäläinen, Timo D.

    2007-02-01

    The paper presents a novel scheme of dynamic power management for UML modeled applications that are executed on a multiprocessor System-on-Chip (SoC) in a distributed manner. The UML models for both application and architecture are designed according to a well-defined UML profile for embedded system design, called TUT-Profile. Application processes are considered as elementary units of distributed execution, and their mapping on a multiprocessor SoC can be dynamically changed at run-time. Our approach on the dynamic power management balances utilized processor resources against current workload at runtime by (1) observing the processor and workload statistics, (2) re-evaluating the amount of required resources (i.e. the number of active processors), and (3) re-mapping the application processes to the minimum set of active processors. The inactive processors are set to a power-save state by using clock-gating. The approach integrates the well-known power management techniques tightly with the UML based design of embedded systems in a novel way. We evaluated the dynamic power management with a WLAN terminal implemented on a multiprocessor SoC on Altera Stratix II FPGA containing up to five Nios II processors and dedicated hardware accelerators. Measurements proved up to 21% savings in the power consumption of the whole FPGA board.

  19. Preparation, characterization and cytocompatibility of porous ACP/PLLA composites.

    PubMed

    Gao, Yanbo; Weng, Wenjian; Cheng, Kui; Du, Piyi; Shen, Ge; Han, Gaorong; Guan, Binggang; Yan, Weiqi

    2006-10-01

    The purpose of this work was to incorporate amorphous calcium phosphate (ACP) into porous poly(L-lactic acid) (PLLA), because ACP is capable of fast phase transformation and morphological change in body fluid, such, a desired pore wall surface within bone tissue engineering scaffolds can be created. A highly porous ACP/PLLA composite was prepared by a thermally induced phase separation technique. The results showed that the composite had an interconnected pore structure with 100 mum macropores and 10 mum micropores, and 91% porosity; 40 nm primary particles of ACP were agglomerated to 3 mum aggregates, and the aggregates were homogeneously distributed in pore walls; These aggregates showed to be in situ transformed into bone-like apatite after 1 h soaking in phosphate buffered saline solution. Human osteoblast-like cell culture showed that the ACP/PLLA composite had better cell adhesion and alkaline phosphotase activity than pure PLLA. This study demonstrates that the ACP/PLLA composite can enhance cytocompatibility and could act as a promising scaffold for bone tissue engineering.

  20. Communication-Driven Codesign for Multiprocessor Systems

    DTIC Science & Technology

    2004-01-01

    Estimator . . . . . . . . . . . . . . . . . . . . . . . . . 58 4.4 Using the Period Graph in a Joint Power/Performance Algorithm . . . . 62 4.5 Genetic ...Experiments with TPLA . . . . . . . . . . . . . . . . . . . . . 122 7.2 Link Synthesis using Genetic Algorithm . . . . . . . . . . . . . . . . . 124 7.2.1... Genetic Algorithm Overview . . . . . . . . . . . . . . . . . . . 124 7.2.2 Problem representation . . . . . . . . . . . . . . . . . . . . . . 127

  1. Coscheduling Technique for Symmetric Multiprocessor Clusters

    SciTech Connect

    Yoo, A B; Jette, M A

    2000-09-18

    Coscheduling is essential for obtaining good performance in a time-shared symmetric multiprocessor (SMP) cluster environment. However, the most common technique, gang scheduling, has limitations such as poor scalability and vulnerability to faults mainly due to explicit synchronization between its components. A decentralized approach called dynamic coscheduling (DCS) has been shown to be effective for network of workstations (NOW), but this technique is not suitable for the workloads on a very large SMP-cluster with thousands of processors. Furthermore, its implementation can be prohibitively expensive for such a large-scale machine. IN this paper, they propose a novel coscheduling technique based on the DCS approach which can achieve coscheduling on very large SMP-clusters in a scalable, efficient, and cost-effective way. In the proposed technique, each local scheduler achieves coscheduling based upon message traffic between the components of parallel jobs. Message trapping is carried out at the user-level, eliminating the need for unsupported hardware or device-level programming. A sending process attaches its status to outgoing messages so local schedulers on remote nodes can make more intelligent scheduling decisions. Once scheduled, processes are guaranteed some minimum period of time to execute. This provides an opportunity to synchronize the parallel job's components across all nodes and achieve good program performance. The results from a performance study reveal that the proposed technique is a promising approach that can reduce response time significantly over uncoordinated time-sharing and batch scheduling.

  2. Transition metal HE`s - VII ACP. Progress report, August 1971--October 1971

    SciTech Connect

    Clink, G.L.

    1998-12-31

    Physical and physicochemical properties of hexaamminechromium III perchlorate (ACP) were investigated to determine its potentiality for HE and/or HE component application. Physicochemical properties obtained through investigation of isothermally aged ACP under conditions of various system and boundary restrictions (open and closed; 50 and 80 C; 0.65 and 0.85 g/cc) show the material to be substantially stable under these simulated isothermal storage conditions from a standpoint of infrared and DTA thermal pattern behavior and chemical analysis of aged residues. Spark sensitivity was 0.25 joules at 5 kv (by LASL type test) and impact sensitivity was about 23 and 14 cm on sandpaper (12A) and steel (12B), respectively.

  3. Parallelization of NAS Benchmarks for Shared Memory Multiprocessors

    NASA Technical Reports Server (NTRS)

    Waheed, Abdul; Yan, Jerry C.; Saini, Subhash (Technical Monitor)

    1998-01-01

    This paper presents our experiences of parallelizing the sequential implementation of NAS benchmarks using compiler directives on SGI Origin2000 distributed shared memory (DSM) system. Porting existing applications to new high performance parallel and distributed computing platforms is a challenging task. Ideally, a user develops a sequential version of the application, leaving the task of porting to new generations of high performance computing systems to parallelization tools and compilers. Due to the simplicity of programming shared-memory multiprocessors, compiler developers have provided various facilities to allow the users to exploit parallelism. Native compilers on SGI Origin2000 support multiprocessing directives to allow users to exploit loop-level parallelism in their programs. Additionally, supporting tools can accomplish this process automatically and present the results of parallelization to the users. We experimented with these compiler directives and supporting tools by parallelizing sequential implementation of NAS benchmarks. Results reported in this paper indicate that with minimal effort, the performance gain is comparable with the hand-parallelized, carefully optimized, message-passing implementations of the same benchmarks.

  4. Multi-processor including data flow accelerator module

    DOEpatents

    Davidson, George S.; Pierce, Paul E.

    1990-01-01

    An accelerator module for a data flow computer includes an intelligent memory. The module is added to a multiprocessor arrangement and uses a shared tagged memory architecture in the data flow computer. The intelligent memory module assigns locations for holding data values in correspondence with arcs leading to a node in a data dependency graph. Each primitive computation is associated with a corresponding memory cell, including a number of slots for operands needed to execute a primitive computation, a primitive identifying pointer, and linking slots for distributing the result of the cell computation to other cells requiring that result as an operand. Circuitry is provided for utilizing tag bits to determine automatically when all operands required by a processor are available and for scheduling the primitive for execution in a queue. Each memory cell of the module may be associated with any of the primitives, and the particular primitive to be executed by the processor associated with the cell is identified by providing an index, such as the cell number for the primitive, to the primitive lookup table of starting addresses. The module thus serves to perform functions previously performed by a number of sections of data flow architectures and coexists with conventional shared memory therein. A multiprocessing system including the module operates in a hybrid mode, wherein the same processing modules are used to perform some processing in a sequential mode, under immediate control of an operating system, while performing other processing in a data flow mode.

  5. Principles for problem aggregation and assignment in medium scale multiprocessors

    NASA Technical Reports Server (NTRS)

    Nicol, David M.; Saltz, Joel H.

    1987-01-01

    One of the most important issues in parallel processing is the mapping of workload to processors. This paper considers a large class of problems having a high degree of potential fine grained parallelism, and execution requirements that are either not predictable, or are too costly to predict. The main issues in mapping such a problem onto medium scale multiprocessors are those of aggregation and assignment. We study a method of parameterized aggregation that makes few assumptions about the workload. The mapping of aggregate units of work onto processors is uniform, and exploits locality of workload intensity to balance the unknown workload. In general, a finer aggregate granularity leads to a better balance at the price of increased communication/synchronization costs; the aggregation parameters can be adjusted to find a reasonable granularity. The effectiveness of this scheme is demonstrated on three model problems: an adaptive one-dimensional fluid dynamics problem with message passing, a sparse triangular linear system solver on both a shared memory and a message-passing machine, and a two-dimensional time-driven battlefield simulation employing message passing. Using the model problems, the tradeoffs are studied between balanced workload and the communication/synchronization costs. Finally, an analytical model is used to explain why the method balances workload and minimizes the variance in system behavior.

  6. Evolution of acyl-ACP-thioesterases and β-ketoacyl-ACP-synthases revealed by protein-protein interactions

    PubMed Central

    Beld, Joris; Blatti, Jillian L.; Behnke, Craig; Mendez, Michael; Burkart, Michael D.

    2014-01-01

    The fatty acid synthase (FAS) is a conserved primary metabolic enzyme complex capable of tolerating cross-species engineering of domains for the development of modified and overproduced fatty acids. In eukaryotes, acyl-acyl carrier protein thioesterases (TEs) off-load mature cargo from the acyl carrier protein (ACP), and plants have developed TEs for short/medium-chain fatty acids. We showed that engineering plant TEs into the green microalga Chlamydomonas reinhardtii does not result in the predicted shift in fatty acid profile. Since fatty acid biosynthesis relies on substrate recognition and protein-protein interactions between the ACP and its partner enzymes, we hypothesized that plant TEs and algal ACP do not functionally interact. Phylogenetic analysis revealed major evolutionary differences between FAS enzymes, including TEs and ketoacyl synthases (KSs), in which the former is present only in some species, whereas the latter is present in all, and has a common ancestor. In line with these results, TEs appeared to be selective towards their ACP partners whereas KSs showed promiscuous behavior across bacterial, plant and algal species. Based on phylogenetic analyses, in silico docking, in vitro mechanistic crosslinking and in vivo algal engineering, we propose that phylogeny can predict effective interactions between ACPs and partner enzymes. PMID:25110394

  7. Palmitoyl-acyl carrier protein (ACP) thioesterase and the evolutionary origin of plant acyl-ACP thioesterases.

    PubMed Central

    Jones, A; Davies, H M; Voelker, T A

    1995-01-01

    Acyl-acyl carrier protein (ACP) thioesterases play an essential role in chain termination during de novo fatty acid synthesis and in the channeling of carbon flux between the two lipid biosynthesis pathways in plants. We have discovered that there are two distinct but related thioesterase gene classes in higher plants, termed FatA and FatB, whose evolutionary divergence appears to be ancient. FatA encodes the already described 18:1-ACP thioesterase. In contrast, FatB representatives encode thioesterases preferring acyl-ACPs having saturated acyl groups. We unexpectedly obtained a 16:0-ACP thioesterase cDNA from Cuphea hookeriana seed, which accumulate predominantly 8:0 and 10:0. The 16:0 thioesterase transcripts were found in non-seed tissues, and expression in transgenic Brassica napus led to the production of a 16:0-rich oil. We present evidence that this type of FatB gene is ancient and ubiquitous in plants and that specialized plant medium-chain thioesterases have evolved independently from such enzymes several times during angiosperm evolution. Also, the ubiquitous 18:1-ACP thioesterase appears to be a derivative of a 16:0 thioesterase. PMID:7734968

  8. Optimal eigenvalue computation on distributed-memory MIMD multiprocessors

    SciTech Connect

    Crivelli, S.; Jessup, E. R.

    1992-10-01

    Simon proves that bisection is not the optimal method for computing an eigenvalue on a single vector processor. In this paper, we show that his analysis does not extend in a straightforward way to the computation of an eigenvalue on a distributed-memory MIMD multiprocessor. In particular, we show how the optimal number of sections (and processors) to use for multisection depends on variables such as the matrix size and certain parameters inherent to the machine. We also show that parallel multisection outperforms the variant of parallel bisection proposed by Swarztrauber or this problem on a distributed-memory MIMD multiprocessor. We present the results of experiments on the 64-processor Intel iPSC/2 hypercube and the 512-processor Intel Touchstone Delta mesh multiprocessor.

  9. Acalabrutinib (ACP-196): a selective second-generation BTK inhibitor.

    PubMed

    Wu, Jingjing; Zhang, Mingzhi; Liu, Delong

    2016-03-09

    More and more targeted agents become available for B cell malignancies with increasing precision and potency. The first-in-class Bruton's tyrosine kinase (BTK) inhibitor, ibrutinib, has been in clinical use for the treatment of chronic lymphocytic leukemia, mantle cell lymphoma, and Waldenstrom's macroglobulinemia. More selective BTK inhibitors (ACP-196, ONO/GS-4059, BGB-3111, CC-292) are being explored. Acalabrutinib (ACP-196) is a novel irreversible second-generation BTK inhibitor that was shown to be more potent and selective than ibrutinib. This review summarized the preclinical research and clinical data of acalabrutinib.

  10. Effect of CPP-ACP paste on dental caries in primary teeth: a randomized trial.

    PubMed

    Sitthisettapong, T; Phantumvanit, P; Huebner, C; Derouen, T

    2012-09-01

    This clinical trial tested the effect of daily application of 10% w/v calcium phosphopeptide-amorphous calcium phosphate (CPP-ACP) paste for 1 yr when added to regular toothbrushing with fluoridated toothpaste to prevent dental caries in pre-school children. High-caries-risk children aged 2½ to 3½ yrs in a suburban area of central Thailand were assigned to receive either CPP-ACP (n = 150) or a placebo control (n = 146) in addition to fluoridated toothpaste. The International Caries Detection and Assessment System (ICDAS) was recorded at baseline, 6 mos, and 1 yr. At 1 yr, a significant increase in mean numbers of enamel and dentin caries lesions, as well as dmfs, was found in both groups (p < 0.001). No significant difference was observed between groups on these 3 outcome measures (p = 0.23, 0.84, and 0.91, respectively). The odds of enamel caries lesion transitions to a state of regression or stability, compared with progression from baseline, was also not different between groups [OR = 1.00, 95% CI (0.86, 1.17)]. This trial found that daily application of 10% w/v CPP-ACP paste on school days for 1 yr, when added to regular toothbrushing with a fluoride toothpaste, had no significant added effect in preventing caries in the primary dentition of these pre-school children (ClinicalTrials.gov number CT01 604109).

  11. Multi-objective two-stage multiprocessor flow shop scheduling - a subgroup particle swarm optimisation approach

    NASA Astrophysics Data System (ADS)

    Huang, Rong-Hwa; Yang, Chang-Lin; Hsu, Chun-Ting

    2015-12-01

    Flow shop production system - compared to other economically important production systems - is popular in real manufacturing environments. This study focuses on the flow shop with multiprocessor scheduling problem (FSMP), and develops an improved particle swarm optimisation heuristic to solve it. Additionally, this study designs an integer programming model to perform effectiveness and robustness testing on the proposed heuristic. Experimental results demonstrate a 10% to 50% improvement in the effectiveness of the proposed heuristic in small-scale problem tests, and a 10% to 40% improvement in the robustness of the heuristic in large-scale problem tests, indicating extremely satisfactory performance.

  12. 7 CFR 701.44 - Agricultural Conservation Program (ACP) contracts.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Agricultural Conservation Program (ACP) contracts. 701... AGENCY, DEPARTMENT OF AGRICULTURE AGRICULTURAL CONSERVATION PROGRAM EMERGENCY CONSERVATION PROGRAM AND CERTAIN RELATED PROGRAMS PREVIOUSLY ADMINISTERED UNDER THIS PART § 701.44 Agricultural...

  13. Development and evaluation of a fault-tolerant multiprocessor (FTMP) computer. Volume 4: FTMP executive summary

    NASA Technical Reports Server (NTRS)

    Smith, T. B., III; Lala, J. H.

    1984-01-01

    The FTMP architecture is a high reliability computer concept modeled after a homogeneous multiprocessor architecture. Elements of the FTMP are operated in tight synchronism with one another and hardware fault-detection and fault-masking is provided which is transparent to the software. Operating system design and user software design is thus greatly simplified. Performance of the FTMP is also comparable to that of a simplex equivalent due to the efficiency of fault handling hardware. The FTMP project constructed an engineering module of the FTMP, programmed the machine and extensively tested the architecture through fault injection and other stress testing. This testing confirmed the soundness of the FTMP concepts.

  14. Abnormal fault-recovery characteristics of the fault-tolerant multiprocessor uncovered using a new fault-injection methodology

    NASA Technical Reports Server (NTRS)

    Padilla, Peter A.

    1991-01-01

    An investigation was made in AIRLAB of the fault handling performance of the Fault Tolerant MultiProcessor (FTMP). Fault handling errors detected during fault injection experiments were characterized. In these fault injection experiments, the FTMP disabled a working unit instead of the faulted unit once in every 500 faults, on the average. System design weaknesses allow active faults to exercise a part of the fault management software that handles Byzantine or lying faults. Byzantine faults behave such that the faulted unit points to a working unit as the source of errors. The design's problems involve: (1) the design and interface between the simplex error detection hardware and the error processing software, (2) the functional capabilities of the FTMP system bus, and (3) the communication requirements of a multiprocessor architecture. These weak areas in the FTMP's design increase the probability that, for any hardware fault, a good line replacement unit (LRU) is mistakenly disabled by the fault management software.

  15. DiFX: A Software Correlator for Very Long Baseline Interferometry Using Multiprocessor Computing Environments

    NASA Astrophysics Data System (ADS)

    Deller, A. T.; Tingay, S. J.; Bailes, M.; West, C.

    2007-03-01

    We describe the development of an FX-style correlator for very long baseline interferometry (VLBI), implemented in software and intended to run in multiprocessor computing environments, such as large clusters of commodity machines (Beowulf clusters) or computers specifically designed for high-performance computing, such as multiprocessor shared-memory machines. We outline the scientific and practical benefits for VLBI correlation, these chiefly being due to the inherent flexibility of software and the fact that the highly parallel and scalable nature of the correlation task is well suited to a multiprocessor computing environment. We suggest scientific applications where such an approach to VLBI correlation is most suited and will give the best returns. We report detailed results from the Distributed FX (DiFX) software correlator running on the Swinburne supercomputer (a Beowulf cluster of ~300 commodity processors), including measures of the performance of the system. For example, to correlate all Stokes products for a 10 antenna array with an aggregate bandwidth of 64 MHz per station, and using typical time and frequency resolution, currently requires an order of 100 desktop-class compute nodes. Due to the effect of Moore's law on commodity computing performance, the total number and cost of compute nodes required to meet a given correlation task continues to decrease rapidly with time. We show detailed comparisons between DiFX and two existing hardware-based correlators: the Australian Long Baseline Array S2 correlator and the NRAO Very Long Baseline Array correlator. In both cases, excellent agreement was found between the correlators. Finally, we describe plans for the future operation of DiFX on the Swinburne supercomputer for both astrophysical and geodetic science.

  16. Extended temperature range ACPS thruster investigation

    NASA Technical Reports Server (NTRS)

    Blubaugh, A. L.; Schoenman, L.

    1974-01-01

    The successful hot fire demonstration of a pulsing liquid hydrogen/liquid oxygen and gaseous hydrogen/liquid oxygen attitude control propulsion system thruster is described. The test was the result of research to develop a simple, lightweight, and high performance reaction control system without the traditional requirements for extensive periods of engine thermal conditioning, or the use of complex equipment to convert both liquid propellants to gas prior to delivery to the engine. Significant departures from conventional injector design practice were employed to achieve an operable design. The work discussed includes thermal and injector manifold priming analyses, subscale injector chilldown tests, and 168 full scale and 550 N (1250 lbF) rocket engine tests. Ignition experiments, at propellant temperatures ranging from cryogenic to ambient, led to the generation of a universal spark ignition system which can reliably ignite an engine when supplied with liquid, two phase, or gaseous propellants. Electrical power requirements for spark igniter are very low.

  17. A multiprocessor computer simulation model employing a feedback scheduler/allocator for memory space and bandwidth matching and TMR processing

    NASA Technical Reports Server (NTRS)

    Bradley, D. B.; Irwin, J. D.

    1974-01-01

    A computer simulation model for a multiprocessor computer is developed that is useful for studying the problem of matching multiprocessor's memory space, memory bandwidth and numbers and speeds of processors with aggregate job set characteristics. The model assumes an input work load of a set of recurrent jobs. The model includes a feedback scheduler/allocator which attempts to improve system performance through higher memory bandwidth utilization by matching individual job requirements for space and bandwidth with space availability and estimates of bandwidth availability at the times of memory allocation. The simulation model includes provisions for specifying precedence relations among the jobs in a job set, and provisions for specifying precedence execution of TMR (Triple Modular Redundant and SIMPLEX (non redundant) jobs.

  18. Preliminary calibration of the ACP safeguards neutron counter

    NASA Astrophysics Data System (ADS)

    Lee, T. H.; Kim, H. D.; Yoon, J. S.; Lee, S. Y.; Swinhoe, M.; Menlove, H. O.

    2007-10-01

    The Advanced Spent Fuel Conditioning Process (ACP), a kind of pyroprocess, has been developed at the Korea Atomic Energy Research Institute (KAERI). Since there is no IAEA safeguards criteria for this process, KAERI has developed a neutron coincidence counter to make it possible to perform a material control and accounting (MC&A) for its ACP materials for the purpose of a transparency in the peaceful uses of nuclear materials at KAERI. The test results of the ACP Safeguards Neutron Counter (ASNC) show a satisfactory performance for the Doubles count measurement with a low measurement error for its cylindrical sample cavity. The neutron detection efficiency is about 21% with an error of ±1.32% along the axial direction of the cavity. Using two 252Cf neutron sources, we obtained various parameters for the Singles and Doubles rates for the ASNC. The Singles, Doubles, and Triples rates for a 252Cf point source were obtained by using the MCNPX code and the results for the ft8 cap multiplicity tally option with the values of ɛ, fd, and ft measured with a strong source most closely match the measurement results to within a 1% error. A preliminary calibration curve for the ASNC was generated by using the point model equation relationship between 244Cm and 252Cf and the calibration coefficient for the non-multiplying sample is 2.78×10 5 (Doubles counts/s/g 244Cm). The preliminary calibration curves for the ACP samples were also obtained by using an MCNPX simulation. A neutron multiplication influence on an increase of the Doubles rate for a metal ingot and UO2 powder is clearly observed. These calibration curves will be modified and complemented, when hot calibration samples become available. To verify the validity of this calibration curve, a measurement of spent fuel standards for a known 244Cm mass will be performed in the near future.

  19. Analysis of a Multiprocessor Guidance Computer. Ph.D. Thesis

    NASA Technical Reports Server (NTRS)

    Maltach, E. G.

    1969-01-01

    The design of the next generation of spaceborne digital computers is described. It analyzes a possible multiprocessor computer configuration. For the analysis, a set of representative space computing tasks was abstracted from the Lunar Module Guidance Computer programs as executed during the lunar landing, from the Apollo program. This computer performs at this time about 24 concurrent functions, with iteration rates from 10 times per second to once every two seconds. These jobs were tabulated in a machine-independent form, and statistics of the overall job set were obtained. It was concluded, based on a comparison of simulation and Markov results, that the Markov process analysis is accurate in predicting overall trends and in configuration comparisons, but does not provide useful detailed information in specific situations. Using both types of analysis, it was determined that the job scheduling function is a critical one for efficiency of the multiprocessor. It is recommended that research into the area of automatic job scheduling be performed.

  20. Using Pin as a Memory Reference Generator for Multiprocessor Simulation

    SciTech Connect

    McCurdy, C

    2005-10-22

    In this paper we describe how we have used Pin to generate a multithreaded reference stream for simulation of a multiprocessor on a uniprocessor. We have taken special care to model as accurately as possible the effects of cache coherence protocol state, and lock and barrier synchronization on the performance of multithreaded applications running on multiprocessor hardware. We first describe a simplified version of the algorithm, which uses semaphores to synchronize instrumented application threads and the simulator on every memory reference. We then describe modifications to that algorithm to model the microarchitectural features of the Itanium2 that affect the timing of memory reference issue. An experimental evaluation determines that while cycle-accurate multithreaded simulation is possible using our approach, the use of semaphores has a negative impact on the performance of the simulator.

  1. Distributed job scheduling in SCI Local Area MultiProcessors

    SciTech Connect

    Agasaveeran, S.; Li, Qiang

    1996-12-31

    Local Area MultiProcessors (LAMP) is a network of personal workstations with distributed shared physical memory provided by high performance technologies such as SCI. LAMP is more tightly coupled than the traditional local area networks (LAN) but is more loosely coupled than the bus based multiprocessors. This paper presents a distributed scheduling algorithm which exploits the distributed shared memory in SCI-LAMP to schedule the idle remote processors among the requesting workstations. It considers fairness by allocating remote processing capacity to the requesting workstations based on their priorities according to the decay-usage scheduling approach. The performance of the algorithm in scheduling both sequential and parallel jobs is evaluated by simulation. It is found that the higher priority nodes achieve faster job response times and higher speedups than that of the lower priority nodes. Lower scheduling overhead allows finer granularity of remote processors sharing than in LAN.

  2. Plasma physics modeling and the Cray-2 multiprocessor

    SciTech Connect

    Killeen, J.

    1985-01-01

    The importance of computer modeling in the magnetic fusion energy research program is discussed. The need for the most advanced supercomputers is described. To meet the demand for more powerful scientific computers to solve larger and more complicated problems, the computer industry is developing multiprocessors. The role of the Cray-2 in plasma physics modeling is discussed with some examples. 28 refs., 2 figs., 1 tab.

  3. Solution of large nonlinear quasistatic structural mechanics problems on distributed-memory multiprocessor computers

    SciTech Connect

    Blanford, M.

    1997-12-31

    Most commercially-available quasistatic finite element programs assemble element stiffnesses into a global stiffness matrix, then use a direct linear equation solver to obtain nodal displacements. However, for large problems (greater than a few hundred thousand degrees of freedom), the memory size and computation time required for this approach becomes prohibitive. Moreover, direct solution does not lend itself to the parallel processing needed for today`s multiprocessor systems. This talk gives an overview of the iterative solution strategy of JAS3D, the nonlinear large-deformation quasistatic finite element program. Because its architecture is derived from an explicit transient-dynamics code, it does not ever assemble a global stiffness matrix. The author describes the approach he used to implement the solver on multiprocessor computers, and shows examples of problems run on hundreds of processors and more than a million degrees of freedom. Finally, he describes some of the work he is presently doing to address the challenges of iterative convergence for ill-conditioned problems.

  4. Characterizing parallel file-access patterns on a large-scale multiprocessor

    NASA Technical Reports Server (NTRS)

    Purakayastha, A.; Ellis, Carla; Kotz, David; Nieuwejaar, Nils; Best, Michael L.

    1995-01-01

    High-performance parallel file systems are needed to satisfy tremendous I/O requirements of parallel scientific applications. The design of such high-performance parallel file systems depends on a comprehensive understanding of the expected workload, but so far there have been very few usage studies of multiprocessor file systems. This paper is part of the CHARISMA project, which intends to fill this void by measuring real file-system workloads on various production parallel machines. In particular, we present results from the CM-5 at the National Center for Supercomputing Applications. Our results are unique because we collect information about nearly every individual I/O request from the mix of jobs running on the machine. Analysis of the traces leads to various recommendations for parallel file-system design.

  5. Biochemical and Structural Characterization of Germicidin Synthase: Analysis of a Type III Polyketide Synthase That Employs Acyl-ACP as a Starter Unit Donor

    SciTech Connect

    Chemler, Joseph A.; Buchholz, Tonia J.; Geders, Todd W.; Akey, David L.; Rath, Christopher M.; Chlipala, George E.; Smith, Janet L.; Sherman, David H.

    2012-08-10

    Germicidin synthase (Gcs) from Streptomyces coelicolor is a type III polyketide synthase (PKS) with broad substrate flexibility for acyl groups linked through a thioester bond to either coenzyme A (CoA) or acyl carrier protein (ACP). Germicidin synthesis was reconstituted in vitro by coupling Gcs with fatty acid biosynthesis. Since Gcs has broad substrate flexibility, we directly compared the kinetic properties of Gcs with both acyl-ACP and acyl-CoA. The catalytic efficiency of Gcs for acyl-ACP was 10-fold higher than for acyl-CoA, suggesting a strong preference toward carrier protein starter unit transfer. The 2.9 {angstrom} germicidin synthase crystal structure revealed canonical type III PKS architecture along with an unusual helical bundle of unknown function that appears to extend the dimerization interface. A pair of arginine residues adjacent to the active site affect catalytic activity but not ACP binding. This investigation provides new and surprising information about the interactions between type III PKSs and ACPs that will facilitate the construction of engineered systems for production of novel polyketides.

  6. Programmable Optoelectronic Multiprocessors And Their Comparison With Symbolic Substitution For Digital Optical Computing

    NASA Astrophysics Data System (ADS)

    Kiamilev, F.; Esener, Sadik C.; Paturi, R.; Fainmar, Y.; Mercier, P.; Guest, C. C.; Lee, Sing H.

    1989-04-01

    This paper introduces programmable arrays of optically inter-connected electronic processors and compares them with conventional symbolic substitution (SS) systems. The comparison is made on the basis of computational efficiency, speed, size, energy utilization, programmability, and fault tolerance. The small grain size and space-invariant connections of SS lead to poor computational efficiency, difficult programming, and difficult incorporation of fault tolerance. Reliance on optical gates as its fundamental building elements is shown to give poor energy utilization. Programmable optoelectronic multiprocessor (POEM) systems, on the other hand, provide the architectural flexibility for good computational efficiency, use an energy-efficient combination of technologies, and support traditional programming methodologies and fault tolerance. Although the inherent clock speed of POEM systems is slower than that of SS systems, for most problems they will provide greater computational throughput. This comparison does not take into account the recent addition of crossover interconnect and space-variant masks to the SS architecture.

  7. Simulating a small turboshaft engine in real-time multiprocessor simulator (RTMPS) environment

    NASA Technical Reports Server (NTRS)

    Milner, E. J.; Arpasi, D. J.

    1986-01-01

    A Real-Time Multiprocessor Simulator (RTMPS) has been developed at NASA Lewis Research Center. The RTMPS uses parallel microprocessors to achieve computing speeds needed for real-time engine simulation. This report describes the use of the RTMPS system to simulate a small turboshaft engine. The process of programming the engine equations and distributing them over one, two, and four processors is discussed. Steady-state and transient results from the RTMPS simulation are compared with results from a main-frame-based simulation. Processor execution times and the associated execution time savings for the two and four processor cases are presented using actual data obtained from the RTMPS system. Included is a discussion of why the minimum achievable calculation time for the turboshaft engine model was attained using four processors. Finally, future enhancements to the RTMPS system are discussed including the development of a generalized partitioning algorithm to automatically distribute the system equations among the processors in optimum fashion.

  8. Intermediate Access Switch: A Multiprocessor Application,

    DTIC Science & Technology

    1983-09-01

    package of trans- lator programs, known as the System Generator , a pre-pass program goes through the source file and converts the special DISCUS...to use the DISCUS system generator [1] to produce a load- able DISCUS function, the following information must be prepared: (a) The code for the main...together by means of the DISCUS system generator [ ]. No more will be said about the system generator here, but it should be noted that usually the entire

  9. Characterizing parallel file-access patterns on a large-scale multiprocessor

    NASA Technical Reports Server (NTRS)

    Purakayastha, Apratim; Ellis, Carla Schlatter; Kotz, David; Nieuwejaar, Nils; Best, Michael

    1994-01-01

    Rapid increases in the computational speeds of multiprocessors have not been matched by corresponding performance enhancements in the I/O subsystem. To satisfy the large and growing I/O requirements of some parallel scientific applications, we need parallel file systems that can provide high-bandwidth and high-volume data transfer between the I/O subsystem and thousands of processors. Design of such high-performance parallel file systems depends on a thorough grasp of the expected workload. So far there have been no comprehensive usage studies of multiprocessor file systems. Our CHARISMA project intends to fill this void. The first results from our study involve an iPSC/860 at NASA Ames. This paper presents results from a different platform, the CM-5 at the National Center for Supercomputing Applications. The CHARISMA studies are unique because we collect information about every individual read and write request and about the entire mix of applications running on the machines. The results of our trace analysis lead to recommendations for parallel file system design. First the file system should support efficient concurrent access to many files, and I/O requests from many jobs under varying load conditions. Second, it must efficiently manage large files kept open for long periods. Third, it should expect to see small requests predominantly sequential access patterns, application-wide synchronous access, no concurrent file-sharing between jobs appreciable byte and block sharing between processes within jobs, and strong interprocess locality. Finally, the trace data suggest that node-level write caches and collective I/O request interfaces may be useful in certain environments.

  10. Sequoia: A fault-tolerant tightly coupled multiprocessor for transaction processing

    SciTech Connect

    Bernstein, P.A.

    1988-02-01

    The Sequoia computer is a tightly coupled multiprocessor, and thus attains the performance advantages of this style of architecture. It avoids most of the fault-tolerance disadvantages of tight coupling by using a new fault-tolerance design. The Sequoia architecture is similar to other multimicroprocessor architectures, such as those of Encore and Sequent, in that it gives dozens of microprocessors shared access to a large main memory. It resembles the Stratus architecture in its extensive use of hardware fault-detection techniques. It resembles Stratus and Auragen in its ability to quickly recover all processes after a single point failure, transparently to the user. However, Sequoia is unique in its combination of a large-scale tightly coupled architecture with a hardware approach to fault tolerance. This article gives an overview of how the hardware architecture and operating systems (OS) work together to provide a high degree of fault tolerance with good system performance.

  11. Development and evaluation of a Fault-Tolerant Multiprocessor (FTMP) computer. Volume 2: FTMP software

    NASA Technical Reports Server (NTRS)

    Lala, J. H.; Smith, T. B., III

    1983-01-01

    The software developed for the Fault-Tolerant Multiprocessor (FTMP) is described. The FTMP executive is a timer-interrupt driven dispatcher that schedules iterative tasks which run at 3.125, 12.5, and 25 Hz. Major tasks which run under the executive include system configuration control, flight control, and display. The flight control task includes autopilot and autoland functions for a jet transport aircraft. System Displays include status displays of all hardware elements (processors, memories, I/O ports, buses), failure log displays showing transient and hard faults, and an autopilot display. All software is in a higher order language (AED, an ALGOL derivative). The executive is a fully distributed general purpose executive which automatically balances the load among available processor triads. Provisions for graceful performance degradation under processing overload are an integral part of the scheduling algorithms.

  12. Modeling and analysis of multiprocessor architectures

    NASA Technical Reports Server (NTRS)

    Yalamanchili, S.; Carpenter, T.

    1989-01-01

    Some technologies developed for system level modeling and analysis of algorithms/architectures using an architecture design and development system are reviewed. Modeling and analysis is described with attention given to modeling constraints and analysis using constrained software graphs. An example is presented of an ADAS graph and its associated attributes, such as firing delay, token consume rate, token produce rate, firing threshold, firing condition, arc queue lengths, associated C or Ada functional model, and stochastic behavior.

  13. Partitioning strategy for efficient nonlinear finite element dynamic analysis on multiprocessor computers

    NASA Technical Reports Server (NTRS)

    Noor, Ahmed K.; Peters, Jeanne M.

    1989-01-01

    A computational procedure is presented for the nonlinear dynamic analysis of unsymmetric structures on vector multiprocessor systems. The procedure is based on a novel hierarchical partitioning strategy in which the response of the unsymmetric and antisymmetric response vectors (modes), each obtained by using only a fraction of the degrees of freedom of the original finite element model. The three key elements of the procedure which result in high degree of concurrency throughout the solution process are: (1) mixed (or primitive variable) formulation with independent shape functions for the different fields; (2) operator splitting or restructuring of the discrete equations at each time step to delineate the symmetric and antisymmetric vectors constituting the response; and (3) two level iterative process for generating the response of the structure. An assessment is made of the effectiveness of the procedure on the CRAY X-MP/4 computers.

  14. Phylogenetic and experimental characterization of an acyl-ACP thioesterase family reveals significant diversity in enzymatic specificity and activity

    PubMed Central

    2011-01-01

    Background Acyl-acyl carrier protein thioesterases (acyl-ACP TEs) catalyze the hydrolysis of the thioester bond that links the acyl chain to the sulfhydryl group of the phosphopantetheine prosthetic group of ACP. This reaction terminates acyl chain elongation of fatty acid biosynthesis, and in plant seeds it is the biochemical determinant of the fatty acid compositions of storage lipids. Results To explore acyl-ACP TE diversity and to identify novel acyl ACP-TEs, 31 acyl-ACP TEs from wide-ranging phylogenetic sources were characterized to ascertain their in vivo activities and substrate specificities. These acyl-ACP TEs were chosen by two different approaches: 1) 24 TEs were selected from public databases on the basis of phylogenetic analysis and fatty acid profile knowledge of their source organisms; and 2) seven TEs were molecularly cloned from oil palm (Elaeis guineensis), coconut (Cocos nucifera) and Cuphea viscosissima, organisms that produce medium-chain and short-chain fatty acids in their seeds. The in vivo substrate specificities of the acyl-ACP TEs were determined in E. coli. Based on their specificities, these enzymes were clustered into three classes: 1) Class I acyl-ACP TEs act primarily on 14- and 16-carbon acyl-ACP substrates; 2) Class II acyl-ACP TEs have broad substrate specificities, with major activities toward 8- and 14-carbon acyl-ACP substrates; and 3) Class III acyl-ACP TEs act predominantly on 8-carbon acyl-ACPs. Several novel acyl-ACP TEs act on short-chain and unsaturated acyl-ACP or 3-ketoacyl-ACP substrates, indicating the diversity of enzymatic specificity in this enzyme family. Conclusion These acyl-ACP TEs can potentially be used to diversify the fatty acid biosynthesis pathway to produce novel fatty acids. PMID:21831316

  15. Acid phosphatase 2 (ACP2) is required for membrane fusion during influenza virus entry

    PubMed Central

    Lee, Jihye; Kim, Jinhee; Son, Kidong; d’Alexandry d’Orengiani, Anne-Laure Pham Humg; Min, Ji-Young

    2017-01-01

    Influenza viruses exploit host factors to successfully replicate in infected cells. Using small interfering RNA (siRNA) technology, we identified six human genes required for influenza A virus (IAV) replication. Here we focused on the role of acid phosphatase 2 (ACP2), as its knockdown showed the greatest inhibition of IAV replication. In IAV-infected cells, depletion of ACP2 resulted in a significant reduction in the expression of viral proteins and mRNA, and led to the attenuation of virus multi-cycle growth. ACP2 knockdown also decreased replication of seasonal influenza A and B viruses and avian IAVs of the H7 subtype. Interestingly, ACP2 depletion had no effect on the replication of Ebola or hepatitis C virus. Because ACP2 is known to be a lysosomal acid phosphatase, we assessed the role of ACP2 in influenza virus entry. While neither binding of the viral particle to the cell surface nor endosomal acidification was affected in ACP2-depleted cells, fusion of the endosomal and viral membranes was impaired. As a result, downstream steps in viral entry were blocked, including nucleocapsid uncoating and nuclear import of viral ribonucleoproteins. Our results established ACP2 as a necessary host factor for regulating the fusion step of influenza virus entry. PMID:28272419

  16. Efficient ICCG on a shared memory multiprocessor

    NASA Technical Reports Server (NTRS)

    Hammond, Steven W.; Schreiber, Robert

    1989-01-01

    Different approaches are discussed for exploiting parallelism in the ICCG (Incomplete Cholesky Conjugate Gradient) method for solving large sparse symmetric positive definite systems of equations on a shared memory parallel computer. Techniques for efficiently solving triangular systems and computing sparse matrix-vector products are explored. Three methods for scheduling the tasks in solving triangular systems are implemented on the Sequent Balance 21000. Sample problems that are representative of a large class of problems solved using iterative methods are used. We show that a static analysis to determine data dependences in the triangular solve can greatly improve its parallel efficiency. We also show that ignoring symmetry and storing the whole matrix can reduce solution time substantially.

  17. Generic Software for Emulating Multiprocessor Architectures.

    DTIC Science & Technology

    1985-05-01

    43214 to the Connection Machine15 to Xerox’ Enterprise16 distributed computing environment, to M.I.T’s Apiary system. 17 However, this increasing body...via sonic interconnection network. A good example of this approach is the Actor 11 language and Apiary archicture of Hewitt.17 This model of

  18. RAPIDbus: Design of an Extensible Multiprocessor Structure.

    DTIC Science & Technology

    1984-05-01

    in both familiaization and software deve!opment by any potential user. Users are more likely to accept a machine to which they can apply what they have...Between Access Time and Clock Rate in an MC68000 System. Engineering Bulletin EB -83, Motorola Semiconductor Products Inc., March, 1980. [36] Jean-Loup

  19. Experience with a Genetic Algorithm Implemented on a Multiprocessor Computer

    NASA Technical Reports Server (NTRS)

    Plassman, Gerald E.; Sobieszczanski-Sobieski, Jaroslaw

    2000-01-01

    Numerical experiments were conducted to find out the extent to which a Genetic Algorithm (GA) may benefit from a multiprocessor implementation, considering, on one hand, that analyses of individual designs in a population are independent of each other so that they may be executed concurrently on separate processors, and, on the other hand, that there are some operations in a GA that cannot be so distributed. The algorithm experimented with was based on a gaussian distribution rather than bit exchange in the GA reproductive mechanism, and the test case was a hub frame structure of up to 1080 design variables. The experimentation engaging up to 128 processors confirmed expectations of radical elapsed time reductions comparing to a conventional single processor implementation. It also demonstrated that the time spent in the non-distributable parts of the algorithm and the attendant cross-processor communication may have a very detrimental effect on the efficient utilization of the multiprocessor machine and on the number of processors that can be used effectively in a concurrent manner. Three techniques were devised and tested to mitigate that effect, resulting in efficiency increasing to exceed 99 percent.

  20. Resource Management for Distributed Parallel Systems

    NASA Technical Reports Server (NTRS)

    Neuman, B. Clifford; Rao, Santosh

    1993-01-01

    Multiprocessor systems should exist in the the larger context of distributed systems, allowing multiprocessor resources to be shared by those that need them. Unfortunately, typical multiprocessor resource management techniques do not scale to large networks. The Prospero Resource Manager (PRM) is a scalable resource allocation system that supports the allocation of processing resources in large networks and multiprocessor systems. To manage resources in such distributed parallel systems, PRM employs three types of managers: system managers, job managers, and node managers. There exist multiple independent instances of each type of manager, reducing bottlenecks. The complexity of each manager is further reduced because each is designed to utilize information at an appropriate level of abstraction.

  1. The mitochondrial acyl carrier protein (ACP) coordinates mitochondrial fatty acid synthesis with iron sulfur cluster biogenesis

    PubMed Central

    Van Vranken, Jonathan G; Jeong, Mi-Young; Wei, Peng; Chen, Yu-Chan; Gygi, Steven P; Winge, Dennis R; Rutter, Jared

    2016-01-01

    Mitochondrial fatty acid synthesis (FASII) and iron sulfur cluster (FeS) biogenesis are both vital biosynthetic processes within mitochondria. In this study, we demonstrate that the mitochondrial acyl carrier protein (ACP), which has a well-known role in FASII, plays an unexpected and evolutionarily conserved role in FeS biogenesis. ACP is a stable and essential subunit of the eukaryotic FeS biogenesis complex. In the absence of ACP, the complex is destabilized resulting in a profound depletion of FeS throughout the cell. This role of ACP depends upon its covalently bound 4’-phosphopantetheine (4-PP)-conjugated acyl chain to support maximal cysteine desulfurase activity. Thus, it is likely that ACP is not simply an obligate subunit but also exploits the 4-PP-conjugated acyl chain to coordinate mitochondrial fatty acid and FeS biogenesis. DOI: http://dx.doi.org/10.7554/eLife.17828.001 PMID:27540631

  2. Low latency messages on distributed memory multiprocessors

    NASA Technical Reports Server (NTRS)

    Rosing, Matthew; Saltz, Joel

    1993-01-01

    Many of the issues in developing an efficient interface for communication on distributed memory machines are described and a portable interface is proposed. Although the hardware component of message latency is less than one microsecond on many distributed memory machines, the software latency associated with sending and receiving typed messages is on the order of 50 microseconds. The reason for this imbalance is that the software interface does not match the hardware. By changing the interface to match the hardware more closely, applications with fine grained communication can be put on these machines. Based on several tests that were run on the iPSC/860, an interface that will better match current distributed memory machines is proposed. The model used in the proposed interface consists of a computation processor and a communication processor on each node. Communication between these processors and other nodes in the system is done through a buffered network. Information that is transmitted is either data or procedures to be executed on the remote processor. The dual processor system is better suited for efficiently handling asynchronous communications compared to a single processor system. The ability to send data or procedure is very flexible for minimizing message latency, based on the type of communication being performed. The test performed and the proposed interface are described.

  3. Purification of a tartrate-resistant acid phosphatase (TrACP) from bovine cortical bone matrix

    SciTech Connect

    Lau, K.H.W.; Freeman, T.K.; Baylink, D.J.

    1986-05-01

    It has been previously demonstrated that a partially purified bovine skeletal TrACP showed protein phosphatase (P'ase) activity that was specific for phosphotyrosyl (Ptyr) proteins. They have now purified TrACP activity from bovine cortical bone matrix to apparent homogeneity. The purification procedures included CM-Sepharose ion-exchange, cellulose phosphate affinity, sephacryl S-300 gel filtration and phenyl sepharose affinity chromatographies. Overall yield was > 25% and purification was approximately 2000-fold with a specific activity of 8.15 umol pNPP hydrolyzed/min/mg protein at 37/sup 0/C. The purified enzyme was judged to be homogeneous based on: (i) appearance as a single protein band on SDS-PAGE (silver staining technique) and (ii) distribution analysis of radioiodinated purified TrACP after SDS-PAGE revealing one band of radioactivity at the same positions as the TrACP protein band. M.W. of TrACP was 34,600 as assessed by gel filtration and 32,500 by SDS-PAGE, suggesting that bovine skeletal TrACP exists as active monomer. Analysis of the purified TrACP by isoelectric focusing showed at least 9 bands of enzyme activities with pIs between 4 and 5, indicating micro-heterogenecity. Substrate specificity analyses revealed that the purified TrACP also hydrolyzed nucleotide tri- and di-phosphates, but not monophosphates or other low M.W. phosphoryl esters, and was also capable of hydrolyzing phosphotyrosine (Tyr(P)) and Ptyr proteins with little activity toward other phosphoamino acids or phosphoseryl proteins. Optimal pH was 5.5 for TrACP activity, 6.0 for Tyr(P) P'ase activity and 7.0 for Ptyr protein P'ase activity. Results of these studies represent the first purification of a skeletal TrACP to apparent homogeneity.

  4. Evaluation of the remineralization capacity of CPP-ACP containing fluoride varnish by different quantitative methods

    PubMed Central

    SAVAS, Selcuk; KAVRÌK, Fevzi; KUCUKYÌLMAZ, Ebru

    2016-01-01

    ABSTRACT Objective The aim of this study was to evaluate the efficacy of CPP-ACP containing fluoride varnish for remineralizing white spot lesions (WSLs) with four different quantitative methods. Material and Methods Four windows (3x3 mm) were created on the enamel surfaces of bovine incisor teeth. A control window was covered with nail varnish, and WSLs were created on the other windows (after demineralization, first week and fourth week) in acidified gel system. The test material (MI Varnish) was applied on the demineralized areas, and the treated enamel samples were stored in artificial saliva. At the fourth week, the enamel surfaces were tested by surface microhardness (SMH), quantitative light-induced fluorescence-digital (QLF-D), energy-dispersive spectroscopy (EDS) and laser fluorescence (LF pen). The data were statistically analyzed (α=0.05). Results While the LF pen measurements showed significant differences at baseline, after demineralization, and after the one-week remineralization period (p<0.05), the difference between the 1- and 4-week was not significant (p>0.05). With regards to the SMH and QLF-D analyses, statistically significant differences were found among all the phases (p<0.05). After the 1- and 4-week treatment periods, the calcium (Ca) and phosphate (P) concentrations and Ca/P ratio were higher compared to those of the demineralization surfaces (p<0.05). Conclusion CPP-ACP containing fluoride varnish provides remineralization of WSLs after a single application and seems suitable for clinical use. PMID:27383699

  5. Effect of ethyl-alpha-hydroxymethylacrylate on selected properties of copolymers and ACP resin composites.

    PubMed

    Antonucci, Joseph M; Fowler, Bruce O; Weir, Michael D; Skrtic, Drago; Stansbury, Jeffrey W

    2008-10-01

    There is an increased interest in the development of bioactive polymeric dental composites and related materials that have potential for mineralized tissue regeneration and preservation. This study explores how the substitution of ethyl alpha-hydroxymethylacryate (EHMA) for 2-hydroxyethyl methacrylate (HEMA) in photo-activated 2,2-bis[p-(2'-hydroxy-3'-methacryloxypropoxy)phenyl]propane (Bis-GMA) and Bis-GMA/tri(ethylene glycol) dimethacrylate (TEGDMA) resins affected selected physicochemical properties of the polymers and their amorphous calcium phosphate (ACP) composites. Rate of polymerization and the degree of conversion (DC) of polymers {EHMA (E), HEMA (H), Bis-GMA/EHMA (BE), Bis-GMA/HEMA (BH), Bis-GMA/TEGDMA/EHMA (BTE) and Bis-GMA/TEGDMA/HEMA (BTH)} were assessed by photo-differential scanning calorimetry and Fourier-Transform Infrared (FTIR) spectroscopy. ACP/BTE and ACP/BTH composites were evaluated for DC, biaxial flexure strength (BFS), water sorption (WS) and mineral ion release. Mid-FTIR and near-IR measurements revealed the following order of decreasing DC: [E, H polymers (97.0%)] > [BE copolymer (89.9%)] > [BH copolymer (86.2%)] > [BTE, BTH copolymers (85.5%)] > [ACP/BTH composite (82.6%)] > [ACP/BTE composite (79.3%)]. Compared to HEMA, EHMA did not adversely affect the BFS of its copolymers and/or ACP composites. Lower WS of BTE copolymers and composites (28% and 14%, respectively, compared to the BTH copolymers and composites) only marginal reduced the ion release from ACP/BTE composites compared to ACP/BTH composites. More hydrophobic ACP composites with acceptable ion-releasing properties were developed by substituting the less hydrophilic EHMA for HEMA.

  6. Dynamic programming on a shared-memory multiprocessor

    NASA Technical Reports Server (NTRS)

    Edmonds, Phil; Chu, Eleanor; George, Alan

    1993-01-01

    Three new algorithms for solving dynamic programming problems on a shared-memory parallel computer are described. All three algorithms attempt to balance work load, while keeping synchronization cost low. In particular, for a multiprocessor having p processors, an analysis of the best algorithm shows that the arithmetic cost is O(n-cubed/6p) and that the synchronization cost is O(absolute value of log sub C n) if p much less than n, where C = (2p-1)/(2p + 1) and n is the size of the problem. The low synchronization cost is important for machines where synchronization is expensive. Analysis and experiments show that the best algorithm is effective in balancing the work load and producing high efficiency.

  7. Parallel simulated annealing algorithms for cell placement on hypercube multiprocessors

    NASA Technical Reports Server (NTRS)

    Banerjee, Prithviraj; Jones, Mark Howard; Sargent, Jeff S.

    1990-01-01

    Two parallel algorithms for standard cell placement using simulated annealing are developed to run on distributed-memory message-passing hypercube multiprocessors. The cells can be mapped in a two-dimensional area of a chip onto processors in an n-dimensional hypercube in two ways, such that both small and large cell exchange and displacement moves can be applied. The computation of the cost function in parallel among all the processors in the hypercube is described, along with a distributed data structure that needs to be stored in the hypercube to support the parallel cost evaluation. A novel tree broadcasting strategy is used extensively for updating cell locations in the parallel environment. A dynamic parallel annealing schedule estimates the errors due to interacting parallel moves and adapts the rate of synchronization automatically. Two novel approaches in controlling error in parallel algorithms are described: heuristic cell coloring and adaptive sequence control.

  8. Parallel algorithm of VLBI software correlator under multiprocessor environment

    NASA Astrophysics Data System (ADS)

    Zheng, Weimin; Zhang, Dong

    2007-11-01

    The correlator is the key signal processing equipment of a Very Lone Baseline Interferometry (VLBI) synthetic aperture telescope. It receives the mass data collected by the VLBI observatories and produces the visibility function of the target, which can be used to spacecraft position, baseline length measurement, synthesis imaging, and other scientific applications. VLBI data correlation is a task of data intensive and computation intensive. This paper presents the algorithms of two parallel software correlators under multiprocessor environments. A near real-time correlator for spacecraft tracking adopts the pipelining and thread-parallel technology, and runs on the SMP (Symmetric Multiple Processor) servers. Another high speed prototype correlator using the mixed Pthreads and MPI (Massage Passing Interface) parallel algorithm is realized on a small Beowulf cluster platform. Both correlators have the characteristic of flexible structure, scalability, and with 10-station data correlating abilities.

  9. Efficacy of a novel at-home bleaching technique with carbamide peroxides modified by CPP-ACP and its effect on the microhardness of bleached enamel.

    PubMed

    Borges, B C D; Borges, J S; de Melo, C D; Pinheiro, I V A; Santos, A J S Dos; Braz, R; Montes, M A J R

    2011-01-01

    This study was designed to evaluate in vitro the efficacy of a novel at-home bleaching technique using 10% or 16% carbamide peroxide modified by casein phosphopeptide-amorphous calcium phosphate (CPP-ACP) and its influence on the microhardness of bleached enamel. A total of 40 bovine incisors were divided into four groups (n=10) according to the bleaching agent used: 10% carbamide peroxide only; a blend of 10% carbamide peroxide and a CPP-ACP paste; 16% carbamide peroxide only; and a blend of 16% carbamide peroxide and a CPP-ACP paste. During the 14-day bleaching regimen, the samples were stored in artificial saliva. The Vickers microhardness and color of the teeth were assessed at baseline (T0) and immediately after the bleaching regimen (T14) using a microhardness tester and a spectrophotometer, respectively. The degree of color change was determined by the Commission Internationale de l'Eclariage (CIE) L*a*b* system (ΔE, ΔL*, Δa*, and Δb*) and Vita shade guide parameters. The data were analyzed by analysis of variance and the Tukey test (p<0.05). The teeth that were bleached with a blend of peroxide (10% or 16%) and the CPP-ACP paste presented increased microhardness values at T14 compared with T0, whereas the samples that were bleached with peroxide only did not show any differences in their microhardness values. All of the bleaching agents were effective at whitening the teeth and did not show a statistically significant difference using the CIEL*a*b* system (ΔE, ΔL*, Δa*, and Δb*) or the Vita shade guide parameters. The use of a CPP-ACP paste with carbamide peroxide bleaching agents increased the bleached enamel's microhardness and did not have an influence on whitening efficacy.

  10. Forward Genetic Screen in Caenorhabditis elegans Suggests F57A10.2 and acp-4 As Suppressors of C9ORF72 Related Phenotypes

    PubMed Central

    Wang, Xin; Hao, Limin; Saur, Taixiang; Joyal, Katelyn; Zhao, Ying; Zhai, Desheng; Li, Jie; Pribadi, Mochtar; Coppola, Giovanni; Cohen, Bruce M.; Buttner, Edgar A.

    2016-01-01

    An abnormally expanded GGGGCC repeat in C9ORF72 is the most frequent causal mutation associated with amyotrophic lateral sclerosis (ALS)/frontotemporal lobar degeneration (FTLD). Both gain-of-function (gf) and loss-of-function (lf) mechanisms have been involved in C9ORF72 related ALS/FTLD. The gf mechanism of C9ORF72 has been studied in various animal models but not in C. elegans. In the present study, we described mutant C9ORF72 modeling in C. elegans and report the finding of two suppressor genes. We made transgenes containing 9 or 29 repeats of GGGGCC in C9ORF72, driven by either the hsp-16 promoters or the unc-119 promoter. Transgenic worms were made to carry such transgenes. Phenotypic analysis of those animals revealed that Phsp−16::(G4C2)29::GFP transgenic animals (EAB 135) displayed severe paralysis by the second day of adulthood, followed by lethality, which phenotypes were less severe in Phsp−16::(G4C2)9::GFP transgenic animals (EAB242), and absent in control strains expressing empty vectors. Suppressor genes of this locomotor phenotype were pursued by introducing mutations with ethyl methanesulfonate in EAB135, screening mutant strains that moved faster than EAB135 by a food-ring assay, identifying mutations by whole-genome sequencing and testing the underlying mechanism of the suppressor genes either by employing RNA interference studies or C. elegans genetics. Three mutant strains, EAB164, EAB165 and EAB167, were identified. Eight suppressor genes carrying nonsense/canonical splicing site mutations were confirmed, among which a nonsense mutation of F57A10.2/VAMP was found in all three mutant strains, and a nonsense mutation of acp-4/ACP2 was only found in EAB164. Knock down/out of those two genes in EAB135 animals by feeding RNAi/introducing a known acp-4 null allele phenocopied the suppression of the C9ORF72 variant related movement defect in the mutant strains. Translational conformation in a mammalian system is required, but our worm data

  11. Microprocessor control for standardized power control systems

    NASA Technical Reports Server (NTRS)

    Green, D. G.; Perry, E.

    1978-01-01

    The use of microcomputers in space-oriented power systems as a replacement for existing inflexible analog type controllers has been proposed. This study examines multiprocessor systems, various modularity concepts and presents a conceptualized power system incorporating a multiprocessor controller as well as preliminary results from a breadboard model of the proposed system.

  12. Dimethylformamide as a cryoprotectant for canine semen diluted and frozen in ACP-106C.

    PubMed

    Mota Filho, A C; Teles, C H A; Jucá, R P; Cardoso, J F S; Uchoa, D C; Campello, C C; Silva, A R; Silva, L D M

    2011-10-15

    The objective was to assess the effect of adding various concentrations of dimethylformamide on characteristics of canine semen diluted in powdered coconut water (ACP-106C; ACP Biotecnologia, Fortaleza, CE, Brazil) and frozen at -196°C. Fifteen ejaculates were collected by manual stimulation from five adult Boxer dogs. The sperm-rich fraction was diluted in ACP-106C (ACP Biotecnologia) containing 10% egg yolk and divided into four aliquots. The cryoprotectants used for each aliquot were 6% glycerol (control group; CG) or 2%, 4%, or 6% dimethylformamide (DF2, DF4, and DF6, respectively). After thawing, total motility (mean ± SEM) for CG (58.4 ± 24.6) was higher (P < 0.05) than that of the other groups (2% dimethylformamide, 24.4 ± 12.3; 4% dimethylformamide, 26.5 ± 16.1; and 6% dimethylformamide, 21.7 ± 17.9). Furthermore, there was a greater percentage of fast, average, and slow moving sperm (assessed with computer-aided semen analysis; CASA) in CG in comparison with the other three groups. Therefore, based on concentrations tested in this study, dimethylformamide, together with ACP-106C (ACP Biotecnologia) and 10% egg yolk as a diluent, yielded unsatisfactory in vitro results for freezing canine semen.

  13. Development and evaluation of a Fault-Tolerant Multiprocessor (FTMP) computer. Volume 3: FTMP test and evaluation

    NASA Technical Reports Server (NTRS)

    Lala, J. H.; Smith, T. B., III

    1983-01-01

    The experimental test and evaluation of the Fault-Tolerant Multiprocessor (FTMP) is described. Major objectives of this exercise include expanding validation envelope, building confidence in the system, revealing any weaknesses in the architectural concepts and in their execution in hardware and software, and in general, stressing the hardware and software. To this end, pin-level faults were injected into one LRU of the FTMP and the FTMP response was measured in terms of fault detection, isolation, and recovery times. A total of 21,055 stuck-at-0, stuck-at-1 and invert-signal faults were injected in the CPU, memory, bus interface circuits, Bus Guardian Units, and voters and error latches. Of these, 17,418 were detected. At least 80 percent of undetected faults are estimated to be on unused pins. The multiprocessor identified all detected faults correctly and recovered successfully in each case. Total recovery time for all faults averaged a little over one second. This can be reduced to half a second by including appropriate self-tests.

  14. Acalabrutinib (ACP-196) in Relapsed Chronic Lymphocytic Leukemia

    PubMed Central

    Byrd, John C; Harrington, Bonnie; O’Brien, Susan; Jones, Jeffrey A; Schuh, Anna; Devereux, Steve; Chaves, Jorge; Wierda, William G; Awan, Farrukh T; Brown, Jennifer R; Hillmen, Peter; Stephens, Deborah M; Ghia, Paolo; Barrientos, Jacqueline C; Pagel, John M; Woyach, Jennifer; Johnson, Dave; Huang, Jane; Wang, Xiaolin; Lannutti, Brian J; Covey, Todd; Fardis, Maria; McGreivy, Jesse; Hamdy, Ahmed; Rothbaum, Wayne; Izumi, Raquel; Diacovo, Thomas G; Johnson, Amy J; Furman, Richard R

    2016-01-01

    Background Irreversible inhibition of Bruton tyrosine kinase (Btk) by ibrutinib represents a significant therapeutic advance for chronic lymphocytic leukemia (CLL). However, ibrutinib also irreversibly inhibits alternative kinase targets, which potentially compromise its therapeutic index. Acalabrutinib (ACP-196) is a more selective irreversible Btk inhibitor specifically designed to improve upon the safety and efficacy of first generation Btk inhibitors. Methods Sixty-one patients with relapsed CLL were treated in a phase 1–2 multicenter study designed to assess the safety, efficacy, pharmacokinetics and pharmacodynamics of oral acalabrutinib. Patients were continuously treated with acalabrutinib 100 to 400 mg once daily in the dose-escalation portion of the study, and 100 mg twice daily in the expansion portion. Results Patient demographics include a median age of 62 years; median of 3 prior therapies; 31% del(17)(p13.1) and 75% unmutated immunoglobulin heavy chain variable genes. No dose-limiting toxicities occurred. The most common adverse events observed were headache (43%), diarrhea (39%) and increased weight (26%). Most adverse events were Grade 1–2. At a median follow-up of 14.3 months, the best overall response rate was 95%, including 85% partial response, 10% partial response with lymphocytosis and 5% stable disease. In patients with del(17)(p13.1), the best overall response was 100%. No cases of Richter’s transformation and only 1 CLL progression have occurred. Conclusions Acalabrutinib is a highly selective Btk inhibitor that provides effective and well tolerated treatment for patients with relapsed CLL, including those with del(17)(p13.1). PMID:26641137

  15. Anatomy of the β-branching enzyme of polyketide biosynthesis and its interaction with an acyl-ACP substrate

    PubMed Central

    Maloney, Finn P.; Gerwick, Lena; Gerwick, William H.; Sherman, David H.; Smith, Janet L.

    2016-01-01

    Alkyl branching at the β position of a polyketide intermediate is an important variation on canonical polyketide natural product biosynthesis. The branching enzyme, 3-hydroxy-3-methylglutaryl synthase (HMGS), catalyzes the aldol addition of an acyl donor to a β-keto-polyketide intermediate acceptor. HMGS is highly selective for two specialized acyl carrier proteins (ACPs) that deliver the donor and acceptor substrates. The HMGS from the curacin A biosynthetic pathway (CurD) was examined to establish the basis for ACP selectivity. The donor ACP (CurB) had high affinity for the enzyme (Kd = 0.5 μM) and could not be substituted by the acceptor ACP. High-resolution crystal structures of HMGS alone and in complex with its donor ACP reveal a tight interaction that depends on exquisite surface shape and charge complementarity between the proteins. Selectivity is explained by HMGS binding to an unusual surface cleft on the donor ACP, in a manner that would exclude the acceptor ACP. Within the active site, HMGS discriminates between pre- and postreaction states of the donor ACP. The free phosphopantetheine (Ppant) cofactor of ACP occupies a conserved pocket that excludes the acetyl-Ppant substrate. In comparison with HMG-CoA (CoA) synthase, the homologous enzyme from primary metabolism, HMGS has several differences at the active site entrance, including a flexible-loop insertion, which may account for the specificity of one enzyme for substrates delivered by ACP and the other by CoA. PMID:27573844

  16. Recovery and cryopreservation of epididymal sperm from agouti (Dasiprocta aguti) using powdered coconut water (ACP-109c) and Tris extenders.

    PubMed

    Silva, M A; Peixoto, G C X; Santos, E A A; Castelo, T S; Oliveira, M F; Silva, A R

    2011-10-01

    The objective was to compare the use of powdered coconut water (ACP-109c; ACP Biotecnologia, Fortaleza, CE, Brazil) and Tris extenders for recovery and cryopreservation of epididymal sperm from agouti. The caudae epididymus and proximal ductus deferens from 10 sexually mature agoutis were subjected to retrograde washing using ACP-109c (ACP Biotecnologia) or Tris. Epididymal sperm were evaluated for motility, vigor, sperm viability, membrane integrity, and morphology. Samples were centrifuged, and extended in the same diluents plus egg yolk (20%) and glycerol (6%), frozen in liquid nitrogen, and subsequently thawed at 37°C for 1 min, followed by re-evaluation of sperm characteristics. The two extenders were similarly efficient for epididymal recovery, with regard to the number and quality of sperm recovered. However, for both extenders, sperm quality decreased (P < 0.05) after centrifugation and dilution. After sperm cryopreservation and thawing, there were (mean ± SEM) 26.5 ± 2.6% motile sperm with 2.6 ± 0.2 vigor in the ACP-109c (ACP Biotecnologia) group, which was significantly better than 9.7 ± 2.6% motile sperm with 1.2 ± 0.3 vigor in Tris. In conclusion, agouti epididymal sperm were successfully recovered using either ACP-109c (ACP Biotecnologia) or Tris extenders; however, ACP-109c (ACP Biotecnologia) was a significantly better extender for processing and cryopreserving these sperm.

  17. Ordered fast fourier transforms on a massively parallel hypercube multiprocessor

    NASA Technical Reports Server (NTRS)

    Tong, Charles; Swarztrauber, Paul N.

    1989-01-01

    Design alternatives for ordered Fast Fourier Transformation (FFT) algorithms were examined on massively parallel hypercube multiprocessors such as the Connection Machine. Particular emphasis is placed on reducing communication which is known to dominate the overall computing time. To this end, the order and computational phases of the FFT were combined, and the sequence to processor maps that reduce communication were used. The class of ordered transforms is expanded to include any FFT in which the order of the transform is the same as that of the input sequence. Two such orderings are examined, namely, standard-order and A-order which can be implemented with equal ease on the Connection Machine where orderings are determined by geometries and priorities. If the sequence has N = 2 exp r elements and the hypercube has P = 2 exp d processors, then a standard-order FFT can be implemented with d + r/2 + 1 parallel transmissions. An A-order sequence can be transformed with 2d - r/2 parallel transmissions which is r - d + 1 fewer than the standard order. A parallel method for computing the trigonometric coefficients is presented that does not use trigonometric functions or interprocessor communication. A performance of 0.9 GFLOPS was obtained for an A-order transform on the Connection Machine.

  18. Solution of open region electromagnetic scattering problems on hypercube multiprocessors

    SciTech Connect

    Gedney, S.D.

    1991-01-01

    This thesis focuses on development of parallel algorithms that exploit hypercube multiprocessor computers for the solution of the scattering of electromagnetic fields by bodies situated in an unbounded space. Initially, algorithms based on the method of moments are investigated for coarse-grained MIMD hypercubes as well as finite-grained MIMD and SIMD hypercubes. It is shown that by exploiting the architecture of each hypercube, supercomputer performance can be obtained using the JPL Mark III hypercube and the Thinking Machine's CM2. Second, the use of the finite-element method for solution of the scattering by bodies of composite materials is presented. For finite bodies situated in an unbounded space, use of an absorbing boundary condition is investigated. A method known as the mixed-{chi} formulation is presented, which reduces the mesh density in the regions away from the scatterer, enhancing the use of an absorbing boundary condition. The scattering by troughs or slots is also investigated using a combined FEM/MoM formulation. This method is extended to the problem of the diffraction of electromagnetic waves by thick conducting and/or dielectric gratings. Finally, the adaptation of the FEM method onto a coarse-grained hypercube is presented.

  19. Performance and economy of a fault-tolerant multiprocessor

    NASA Technical Reports Server (NTRS)

    Lala, J. H.; Smith, C. J.

    1979-01-01

    The FTMP (Fault-Tolerant Multiprocessor) is one of two central aircraft fault-tolerant architectures now in the prototype phase under NASA sponsorship. The intended application of the computer includes such critical real-time tasks as 'fly-by-wire' active control and completely automatic Category III landings of commercial aircraft. The FTMP architecture is briefly described and it is shown that it is a viable solution to the multi-faceted problems of safety, speed, and cost. Three job dispatch strategies are described, and their results with respect to job-starting delay are presented. The first strategy is a simple First-Come-First-Serve (FCFS) job dispatch executive. The other two schedulers are an adaptive FCFS and an interrupt driven scheduler. Three failure modes are discussed, and the FTMP survival probability in the face of random hard failures is evaluated. It is noted that the hourly cost of operating two FTMPs in a transport aircraft can be as little as one-to-two percent of the total flight-hour cost of the aircraft.

  20. Parallel Reduction of Large Radar Interferometry Scenes on a Mid-scale, Symmetric Multiprocessor Mainframe Computer

    NASA Astrophysics Data System (ADS)

    Harcke, L. J.; Zebker, H. A.

    2006-12-01

    We report on experiences in processing repeat-orbit interferometry data sets on a mid-scale multiprocessor mainframe computer. Newer applications of interferometric and polarimetric data processing, such as permanent scatterer deformation monitoring, require the generation of many tens of repeat-pass interferometry data pairs, perhaps 30 to 50, to provide sufficient input to the deformation model. Moving existing radar processing techniques toward massively parallel computation provides a path to coping with such large data sets, which can consist of 30 to 50 gigabytes (GB) of raw data. In June 2006, the Stanford School of Earth Sciences dedicated a new computation center for general research use. Two large machines compose the center: a single-node, symmetric multiprocessor (SMP) machine with 48 processor cores and a single 192~GB memory, and a 64 node distributed cluster containing 128 processor cores with at least 2~GB of memory per node. Distributed processing of the matched filter for synthetic aperture radar image formation requires a high communication-to-computation ratio. Experiments performed over a decade ago on distributed memory supercomputers, and repeated a half-decade ago on commodity workstation clusters, both demonstrated saturation of inter-node communication links. For this reason, we chose to parallelize the interferometric processor on the shared memory computer using the OpenMP programming standard. We find, not unexpectedly, that the input/output stage of processing standard 100-by-100~kilometer ERS-1 scenes quickly dominates the total computation time, and that only modest increases in processing time are achieved after 8 to 16 processor cores are brought to bear on a single data set. The input and output data sit in single, serially accessed disk files, creating a bottleneck for overall throughput. This points to a scheme for efficient partitioning of mid-size (24 to 48~core) machines for reducing large Earth science data sets, where 3 to

  1. Expert Systems on Multiprocessor Architectures. Volume 4. Technical Reports

    DTIC Science & Technology

    1991-06-01

    cause the Operator An-Op to be defined, so that the compiler knows about it, at compile time. A peep- hole is allowed down into Lisp at this point, in...New Instance of Sheep Subsystem Of : a-flock, my-animals Initialisation : Colour (- " Black " This first example causes a new Sheep to be created...which is part of a-flock and of my- animals and which is black . It should be noted that the use of the name Sheep in this ex- ample is an expression

  2. Expert Systems on Multiprocessor Architectures. Volume 3. Technical Reports

    DTIC Science & Technology

    1991-06-01

    track consisting of scantimes 100, 110, 120 .... 1 50. Suppose that the rate of data .rrival is high, causing message order to be scrambled , and that...sera’etsm xo-- under ur control m aa actons hared memory --s-.r-buced meory .ia~P ?O fl Egg ---- fO~s mu Ftl-pr r uhe-pr# macnines mac -es -Fgure 1...where there are one or more streams of continuous input data, the problem appears as scrambled data arrival - the data may be out of temporal sequence

  3. Efficacious long-term cooling and freezing of Sapajus apella semen in ACP-118(®).

    PubMed

    Leão, D L; Miranda, S A; Brito, A B; Lima, J S; Santos, R R; Domingues, S F S

    2015-08-01

    The objectives of the present study were to test the effect of coconut water solution (CWS), TES-TRIS and ACP-118(®) on the seminal cooling and cryopreservation of semen from capuchin monkeys (Sapajus apella). Semen was collected from six males by electro-ejaculation, diluted in TES-TRIS, CWS or ACP-118(®), and maintained at 4°C for 28h. Semen was subsequently evaluated (Experiment I) or cryopreserved in the presence of different glycerol concentrations (3%, 5% or 7%) (Experiment II). ACP-118(®) was the preferred extender to preserve sperm motility and viability after 28h incubation at 4°C. Cooled sperm were successfully frozen-thawed in a medium containing 3% glycerol. After thawing, sperm retained the capacity to fertilize oocytes and zygotes were obtained. In conclusion, ACP-118(®) can be effectively and efficiently used as extender for the cooling of S. apella semen. Furthermore, cryopreservation using ACP-118(®) by adding 3% glycerol is suitable to maintain sperm morphology and the capacity of these cells to fertilize in vitro.

  4. [Constructing an ACP Simulation-Situation Communication Training Program for Patients With Chronic Kidney Disease].

    PubMed

    Chen, Jui-O; Lin, Chiu-Chu

    2016-06-01

    The aging population and changing lifestyles have lead to the increased general risk of chronic kidney disease. Taiwan currently has the highest incidence and prevalence of end-stage renal disease (ESRD) of any country or region in the world. Hemodialysis patients must endure comorbidities and face the uncertainties of death. The best way to achieve a good death is for patients to sign advance care planning (ACP). However, the key factors contributing to low ACP signature rates have been the lack of communication skills and related training among medical staffs. This article explores the dilemma of ACP using an example of chronic kidney disease (CKD) and proposes a theory-based approach to develop a theoretical framework for an ACP simulation-situation communication training program that integrates the simulation situation model, PREPARED model, and scaffolding theory. Readers may use this framework to design ACP simulation-situation communication training programs that conform to their own conditions and then test the effectiveness and feasibility of these programs in clinical settings.

  5. Radiosynthesis and biological evaluation of a novel enoyl-ACP reductase inhibitor for Staphylococcus aureus

    PubMed Central

    Wang, Hui; Lu, Yang; Liu, Li; Kim, Sung Won; Hooker, Jacob M.; Fowler, Joanna S.; Tonge, Peter J.

    2014-01-01

    The pharmacokinetics (PK) and pharmacodynamics (PD) of PT119, a potent Staphylococcus aureus enoyl-ACP reductase (saFabI) inhibitor with a Ki value of 0.01 nM and a residence time of 750 min on the enzyme target, has been evaluated in mice. PT119 was found to have promising antibacterial activity in two different S. aureus infection models: it caused a 3 log reduction in the CFU’s in a mouse thigh muscle infection model and increased the survival rate from 0% to 50% in a mouse systemic infection model. PT119 was then radiolabeled with carbon-11 to evaluate its biodistribution and PK in both healthy and S. aureus infected mice using positron emission tomography (PET). The biodistribution of [11C]PT119 and/or its labeled metabolites did not differ significantly between the healthy group and the infected group, and PT119 was found to distribute equally between serum and tissue during the ~1 h of analysis permitted by the carbon-11 half life. This approach provides important data for PK/PD modeling and is the first step in identifying radiotracers that can non-invasively image bacterial infection in vivo. PMID:25217335

  6. Radiosynthesis and biological evaluation of a novel enoyl-ACP reductase inhibitor for Staphylococcus aureus

    SciTech Connect

    Wang, Hui; Lu, Yang; Liu, Li; Kim, Sung Won; Hooker, Jacob M.; Fowler, Joanna S.; Tonge, Peter J.

    2014-09-06

    Here we evaluated the pharmacokinetics (PK) and pharmacodynamics (PD) of PT119, a potent Staphylococcus aureus enoyl-ACP reductase (saFabI) inhibitor with a Ki value of 0.01 nM and a residence time of 750 min on the enzyme target in mice. PT119 was found to have promising antibacterial activity in two different S. aureus infection models: it caused a 3 log reduction in the CFU’s in a mouse thigh muscle infection model and increased the survival rate from 0% to 50% in a mouse systemic infection model. PT119 was then radiolabeled with carbon-11 to evaluate its biodistribution and PK in both healthy and S. aureus infected mice using positron emission tomography (PET). The biodistribution of [11C]PT119 and/or its labeled metabolites did not differ significantly between the healthy group and the infected group, and PT119 was found to distribute equally between serum and tissue during the ~1 h of analysis permitted by the carbon-11 half life. This approach provides important data for PK/PD modeling and is the first step in identifying radiotracers that can non-invasively image bacterial infection in vivo.

  7. Radiosynthesis and biological evaluation of a novel enoyl-ACP reductase inhibitor for Staphylococcus aureus

    DOE PAGES

    Wang, Hui; Lu, Yang; Liu, Li; ...

    2014-09-06

    Here we evaluated the pharmacokinetics (PK) and pharmacodynamics (PD) of PT119, a potent Staphylococcus aureus enoyl-ACP reductase (saFabI) inhibitor with a Ki value of 0.01 nM and a residence time of 750 min on the enzyme target in mice. PT119 was found to have promising antibacterial activity in two different S. aureus infection models: it caused a 3 log reduction in the CFU’s in a mouse thigh muscle infection model and increased the survival rate from 0% to 50% in a mouse systemic infection model. PT119 was then radiolabeled with carbon-11 to evaluate its biodistribution and PK in both healthymore » and S. aureus infected mice using positron emission tomography (PET). The biodistribution of [11C]PT119 and/or its labeled metabolites did not differ significantly between the healthy group and the infected group, and PT119 was found to distribute equally between serum and tissue during the ~1 h of analysis permitted by the carbon-11 half life. This approach provides important data for PK/PD modeling and is the first step in identifying radiotracers that can non-invasively image bacterial infection in vivo.« less

  8. Advanced spent fuel conditioning process (ACP) progress with respect to remote operation and maintenance

    SciTech Connect

    Lee, Hyo Jik; Lee, Jong Kwang; Park, Byung Suk; Yoon, Ji Sup

    2007-07-01

    Korea Atomic Energy Research Institute (KAERI) has been developing an Advanced Spent Fuel Conditioning Process (ACP) to reduce the volume of spent fuel, and the construction of the ACP facility (ACPF) for a demonstration of its technical feasibility has been completed. In 2006 two inactive demonstrations were performed with simulated fuels in the ACPF. Accompanied by process equipment performance tests, its remote operability and maintainability were also tested during that time. Procedures for remote operation tasks are well addressed in this study and evaluated thoroughly. Also, remote maintenance and repair tasks are addressed regarding some important modules with a high priority order. The above remote handling test's results provided a lot of information such as items to be revised to improve the efficiency of the remote handling tasks. This paper deals with the current status of ACP and the progress of remote handling of ACPF. (authors)

  9. Optical RAM-enabled cache memory and optical routing for chip multiprocessors: technologies and architectures

    NASA Astrophysics Data System (ADS)

    Pleros, Nikos; Maniotis, Pavlos; Alexoudi, Theonitsa; Fitsios, Dimitris; Vagionas, Christos; Papaioannou, Sotiris; Vyrsokinos, K.; Kanellos, George T.

    2014-03-01

    The processor-memory performance gap, commonly referred to as "Memory Wall" problem, owes to the speed mismatch between processor and electronic RAM clock frequencies, forcing current Chip Multiprocessor (CMP) configurations to consume more than 50% of the chip real-estate for caching purposes. In this article, we present our recent work spanning from Si-based integrated optical RAM cell architectures up to complete optical cache memory architectures for Chip Multiprocessor configurations. Moreover, we discuss on e/o router subsystems with up to Tb/s routing capacity for cache interconnection purposes within CMP configurations, currently pursued within the FP7 PhoxTrot project.

  10. USGS tethered ACP platforms: New design means more safety and accuracy

    USGS Publications Warehouse

    Morlock, S.E.; Stewart, J.A.; Rehmel, M.S.

    2004-01-01

    The US Geological Survey has developed an innovative tethered platform that supports an Acoustic Current Profiler (ACP) in making stream-flow measurements (use of the term ACP in this article refers to a class of instruments and not a specific brand name or model). The tethered platform reduces the hazards involved in conventional methods of stream-flow measurement. The use of the platform reduces or eliminates time spent by personnel in streams and boats or on bridges and cableway and stream-flow measurement accuracy is increased.

  11. Evaluation of fertilizing potential of frozen-thawed dog spermatozoa diluted in ACP-106 using an in vitro sperm--oocyte interaction assay.

    PubMed

    Cardoso, R C S; Silva, A R; Silva, L D M; Chirinéa, V H; Souza, F F; Lopes, M D

    2007-02-01

    The aim of present study was to evaluate frozen canine semen with ACP-106 (Powder Coconut Water) using an in vitro sperm--oocyte interaction assay (SOIA). Ten ejaculates from five stud dogs were diluted in ACP-106 containing 20% egg yolk, submitted to cooling in a thermal box for 40 min and in a refrigerator for 30 min. After this period, a second dilution was performed using ACP-106 containing 20% egg yolk and 12% glycerol. Samples were thawed at 38 degrees C for 1 min. Post-thaw motility was evaluated by light microscopy and by using a computer aided semen analysis (CASA). Plasma membrane integrity and sperm morphology/acrosomal status were evaluated by fluorescent probes (C-FDA/PI) and Bengal Rose respectively. Moreover, frozen-thawed semen was analysed by a SOIA. Subjective post-thaw motility was 52.0 +/- 14.8% and it was significant higher than the total motility estimated by CASA (23.0 +/- 14.8%) because this system considered the egg yolk debris as immotile spermatozoa. Although normal sperm rate and acrosomal integrity evaluated by Bengal Rose stain was 89.6 +/- 3.1% and 94.3 +/- 3.1%, respectively, post-thaw percentage of intact plasma membrane was only 35.1 +/- 14.3%. Regarding SOIA, the percentage of interacted oocytes (bound, penetrated and bound and/or penetrated) was 75.3%. Using regression analysis, it was found significant relations between some CASA patterns and data for SOIA. In conclusion, the freezing-thawing procedure using ACP-106 was efficient for maintain the in vitro fertility potential of dog spermatozoa.

  12. Parallel-vector algorithms for particle simulations on shared-memory multiprocessors

    SciTech Connect

    Nishiura, Daisuke; Sakaguchi, Hide

    2011-03-01

    Over the last few decades, the computational demands of massive particle-based simulations for both scientific and industrial purposes have been continuously increasing. Hence, considerable efforts are being made to develop parallel computing techniques on various platforms. In such simulations, particles freely move within a given space, and so on a distributed-memory system, load balancing, i.e., assigning an equal number of particles to each processor, is not guaranteed. However, shared-memory systems achieve better load balancing for particle models, but suffer from the intrinsic drawback of memory access competition, particularly during (1) paring of contact candidates from among neighboring particles and (2) force summation for each particle. Here, novel algorithms are proposed to overcome these two problems. For the first problem, the key is a pre-conditioning process during which particle labels are sorted by a cell label in the domain to which the particles belong. Then, a list of contact candidates is constructed by pairing the sorted particle labels. For the latter problem, a table comprising the list indexes of the contact candidate pairs is created and used to sum the contact forces acting on each particle for all contacts according to Newton's third law. With just these methods, memory access competition is avoided without additional redundant procedures. The parallel efficiency and compatibility of these two algorithms were evaluated in discrete element method (DEM) simulations on four types of shared-memory parallel computers: a multicore multiprocessor computer, scalar supercomputer, vector supercomputer, and graphics processing unit. The computational efficiency of a DEM code was found to be drastically improved with our algorithms on all but the scalar supercomputer. Thus, the developed parallel algorithms are useful on shared-memory parallel computers with sufficient memory bandwidth.

  13. Design of a high perveance ACP gun for the Litton 95 GHz harmonic gyroklystron

    SciTech Connect

    True, R.B.; Bemis, T.M.; Good, G.R.; Scheitrum, G.P.; Higgins, L.L.

    1995-12-31

    This paper describes a new advanced centerpost (ACP) gun for the Litton 95 GHz harmonic gyroklystron which provides roughly four times higher beam current than that available from the original gun. The magnetic focusing structure has been carefully matched to the beam in order to provide a very high quality, low velocity spread, axis-encircling beam. The level of magnetic field in the rf interaction region is consistent with fourth harmonic operation of the device (approximately 8,500 gauss) which allows a conventional solenoid to be used. At an operating voltage of 30 kilovolts and a beam current of 6.4 amps, peak power in the beam from the new gun is 192 kilowatts. At this voltage and current, the perveance of the gun is 1.23 micropervs. Procedures, computer codes, and methodology used to design the gun and magnetic focusing system will be discussed in detail. In design of the magnetic focusing structure, the authors made use of codes POISSON and DEMEOS, in combination with a powerful design method developed by one of the authors (Bemis). The method is based upon Busch`s theorem ;and it will be discussed in the paper. The gun was designed to operate into a .064 inch diameter drift tube for values of {alpha} ranging from 1.2 to 2.0 depending upon the beam voltage. Computed axial velocity spread ({delta}{nu}{sub z}/{nu}{sub z}) achieved so far is just over 2.5 percent which represents an excellent start considering the level of perveance and beam power density. The authors are working to lower this number even further and will report the results of their efforts at the meeting.

  14. Evolution of the AKH/corazonin/ACP/GnRH receptor superfamily and their ligands in the Protostomia.

    PubMed

    Hauser, Frank; Grimmelikhuijzen, Cornelis J P

    2014-12-01

    In this review we trace the evolutionary connections between GnRH receptors from vertebrates and the receptors for adipokinetic hormone (AKH), AKH/corazonin-related peptide (ACP), and corazonin from arthropods. We conclude that these G protein-coupled receptors (GPCRs) are closely related and have a common evolutionary origin, which dates back to the split of Proto- and Deuterostomia, about 700 million years ago. We propose that in the protostomian lineage, the ancestral GnRH-like receptor gene duplicated as did its GnRH-like ligand gene, followed by diversification, leading to (i) a corazonin receptor gene and a corazonin-like ligand gene, and (ii) an AKH receptor gene and an AKH-like ligand gene in the Mollusca and Annelida. Subsequently, the AKH receptor and ligand genes duplicated once more, yielding the situation that we know from arthropods today, where three independent hormonal systems exist, signalling with AKH, ACP, and corazonin. Our model for the evolution of GnRH signaling in the Protostomia is a striking example of receptor-ligand co-evolution. This model has been developed using several bioinformatics tools (TBLASTN searches, phylogenetic tree analyses), which also helped us to annotate six novel AKH preprohormones and their corresponding AKH sequences from the following molluscs: the sea hare Aplysia californica (AKH sequence: pQIHFSPDWGTamide), the sea slug Tritonia diomedea (pQIHFSPGWEPamide), the fresh water snail Bithynia siamensis goniomphalos (pQIHFTPGWGSamide), the owl limpet Lottia gigantea (pQIHFSPTWGSamide), the oyster Crassostrea gigas (pQVSFSTNWGSamide), and the freshwater pearl mussel Hyriopsis cumingii (pQISFSTNWGSamide). We also found AKHs in the tardigrade Hysibius dujardini (pQLSFTGWGHamide), the rotifer Brachionus calycifloros (pQLTFSSDWSGamide), and the penis worm Priapulus caudatus (pQIFFSKGWRGamide). This is the first report, showing that AKH signaling is widespread in molluscs.

  15. Solution Structure of 4'-Phosphopantetheine - GmACP3 from Geobacter Metallireducens: A Specialized Acyl Carrier Protein with Atypical Structural Features and a Putative Role in Lipopolysaccharide Biosyntheses

    SciTech Connect

    Ramelot, Theresa A.; Smola, Matthew J.; Lee, Hsiau-Wei; Ciccosanti, Colleen; Hamilton, Keith; Acton, Thomas; Xiao, Rong; Everett, John K.; Prestegard, James H.; Montelione, Gaetano; Kennedy, Michael A.

    2011-03-08

    GmACP3 from Geobacter metallireducens is a specialized acyl carrier protein (ACP) whose gene, gmet_2339, is located near genes encoding many proteins involved in lipopolysaccharide (LPS) biosynthesis, indicating a likely function for GmACP3 in LPS production. By overexpression in Escherichia coli, about 50% holo-GmACP3 and 50% apo-GmACP3 were obtained. Apo-GmACP3 exhibited slow precipitation and non-monomeric behavior by 15NNMRrelaxation measurements. Addition of 4'-phosphopantetheine (4'-PP) via enzymatic conversion by E. coli holo-ACP synthase resulted in stable >95% holo-GmACP3 that was characterized as monomeric by 15N relaxation measurements and had no indication of conformational exchange. We have determined a high-resolution solution structure of holo-GmACP3 by standard NMR methods, including refinement with two sets of NH residual dipolar couplings, allowing for a detailed structural analysis of the interactions between 4'-PP and GmACP3. Whereas the overall four helix bundle topology is similar to previously solved ACP structures, this structure has unique characteristics, including an ordered 4'-PP conformation that places the thiol at the entrance to a central hydrophobic cavity near a conserved hydrogen-bonded Trp-His pair. These residues are part of a conservedWDSLxH/N motif found in GmACP3 and its orthologs. The helix locations and the large hydrophobic cavity are more similar tomediumand long-chain acyl-ACPs than to other apo- and holo-ACP structures. Taken together, structural characterization along with bioinformatic analysis of nearby genes suggests that GmACP3 is involved in lipid A acylation, possibly by atypical long-chain hydroxy fatty acids, and potentially is involved in synthesis of secondary metabolites.

  16. Results of First Outdoor Comparison Between Absolute Cavity Pyrgeometer (ACP) and Infrared Integrating Sphere (IRIS) Radiometer at PMOD (Presentation)

    SciTech Connect

    Reda, I.; Grobner, J.; Wacker, S.; Stoffel, T.

    2013-03-01

    The ACP and IRIS are developed to establish a world reference for calibrating pyrgeometers with traceability to SI units. The two radiometers are unwindowed with negligible spectral dependence, and traceable to SI units through the temperature scale (ITS-90). The first outdoor comparison between the two designs was held from January 28 to February 8, 2013 at the Physikalisch-Metorologisches Observatorium Davos (PMOD). The difference between the irradiance measured by ACP and that of IRIS was within 1 W/m2. A difference of 5 W/m2 was observed between the irradiance measured by ACP&IRIS and that of the interim World Infrared Standard Group (WISG).

  17. Effects of the addition of casein phosphopeptide-amorphous calcium phosphate (CPP-ACP) on mechanical properties of luting and lining glass ionomer cement

    NASA Astrophysics Data System (ADS)

    Heravi, Farzin; Bagheri, Hossein; Rangrazi, Abdolrasoul; Mojtaba Zebarjad, Seyed

    2016-07-01

    Recently, the addition of casein phosphopeptide-amorphous calcium phosphate (CPP-ACP) into glass ionomer cements (GICs) has attracted interest due to its remineralization of teeth and its antibacterial effects. However, it should be investigated to ensure that the incorporation of CPP-ACP does not have significant adverse effects on its mechanical properties. The purpose of this study was to evaluate the effects of the addition of CPP-ACP on the mechanical properties of luting and lining GIC. The first step was to synthesize the CPP-ACP. Then the CPP-ACP at concentrations of 1%, 1.56% and 2% of CPP-ACP was added into a luting and lining GIC. GIC without CPP-ACP was used as a control group. The results revealed that the incorporation of CPP-ACP up to 1.56%(w/w) increased the flexural strength (29%), diametral tensile strength (36%) and microhardness (18%), followed by a reduction in these mechanical properties at 2%(w/w) CPP-ACP. The wear rate was significantly decreased (23%) in 1.56%(w/w) concentration of CPP-ACP and it was increased in 2%(w/w). Accordingly, the addition of 1.56%(w/w) CPP-ACP into luting and lining GIC had no adverse effect on the mechanical properties of luting and lining GIC and could be used in clinical practice.

  18. A 12-Week Assessment of the Treatment of White Spot Lesions with CPP-ACP Paste and/or Fluoride Varnish

    PubMed Central

    Güçlü, Zeynep Aslı; Alaçam, Alev

    2016-01-01

    This 12-week clinical study evaluated the impact of 10% CPP-ACP and 5% sodium fluoride varnish regimes on the regression of nonorthodontic white spot lesions (WSLs). The study included 21 children with 101 WSLs who were randomised into four treatment regimes: weekly clinical applications of fluoride varnish for the first month (FV); twice daily self-applications of CPP-ACP paste (CPP-ACP); weekly applications of fluoride varnish for the first month and twice daily self-applications of CPP-ACP paste (CPP-ACP-FV); and no intervention (control). All groups undertook a standard oral hygiene protocol and weekly consultation. Visual appraisals and laser fluorescence (LF) measurements were made in weeks one and twelve. The majority of WSLs in the control and FV groups exhibited no shift in appearance, whereas, in the CPP-ACP and CPP-ACP-FV groups, the lesions predominantly regressed. The visual and LF assessments indicated that the extent of remineralisation afforded by the treatments was of the following order: control ~ FV < CPP-ACP ~ CPP-ACP-FV. Self-applications of CPP-ACP paste as an adjunct to standard oral hygiene significantly improved the appearance and remineralisation of WSLs. No advantage was observed for the use of fluoride varnish as a supplement to either the standard or CPP-ACP-enhanced oral hygiene regimes. PMID:27843950

  19. Design and evaluation of a fault-tolerant multiprocessor using hardware recovery blocks

    NASA Technical Reports Server (NTRS)

    Lee, Y. H.; Shin, K. G.

    1982-01-01

    A fault-tolerant multiprocessor with a rollback recovery mechanism is discussed. The rollback mechanism is based on the hardware recovery block which is a hardware equivalent to the software recovery block. The hardware recovery block is constructed by consecutive state-save operations and several state-save units in every processor and memory module. When a fault is detected, the multiprocessor reconfigures itself to replace the faulty component and then the process originally assigned to the faulty component retreats to one of the previously saved states in order to resume fault-free execution. A mathematical model is proposed to calculate both the coverage of multi-step rollback recovery and the risk of restart. A performance evaluation in terms of task execution time is also presented.

  20. Satisfiability Test with Synchronous Simulated Annealing on the Fujitsu AP1000 Massively-Parallel Multiprocessor

    NASA Technical Reports Server (NTRS)

    Sohn, Andrew; Biswas, Rupak

    1996-01-01

    Solving the hard Satisfiability Problem is time consuming even for modest-sized problem instances. Solving the Random L-SAT Problem is especially difficult due to the ratio of clauses to variables. This report presents a parallel synchronous simulated annealing method for solving the Random L-SAT Problem on a large-scale distributed-memory multiprocessor. In particular, we use a parallel synchronous simulated annealing procedure, called Generalized Speculative Computation, which guarantees the same decision sequence as sequential simulated annealing. To demonstrate the performance of the parallel method, we have selected problem instances varying in size from 100-variables/425-clauses to 5000-variables/21,250-clauses. Experimental results on the AP1000 multiprocessor indicate that our approach can satisfy 99.9 percent of the clauses while giving almost a 70-fold speedup on 500 processors.

  1. Fault detection, isolation and reconfiguration in FTMP Methods and experimental results. [fault tolerant multiprocessor

    NASA Technical Reports Server (NTRS)

    Lala, J. H.

    1983-01-01

    The Fault-Tolerant Multiprocessor (FTMP) is a highly reliable computer designed to meet a goal of 10 to the -10th failures per hour and built with the objective of flying an active-control transport aircraft. Fault detection, identification, and recovery software is described, and experimental results obtained by injecting faults in the pin level in the FTMP are presented. Over 21,000 faults were injected in the CPU, memory, bus interface circuits, and error detection, masking, and error reporting circuits of one LRU of the multiprocessor. Detection, isolation, and reconfiguration times were recorded for each fault, and the results were found to agree well with earlier assumptions made in reliability modeling.

  2. Histochemical localization and characterization of AKP, ACP, NSE, and POD from cultured Apostichopus japonicus

    NASA Astrophysics Data System (ADS)

    Li, Jiye; Sun, Xiuqin; Zheng, Fengrong; Sun, Hushan

    2009-09-01

    We investigated the distribution of four enzymes involved in the immune response of Apostichopus japonicus. We collected samples of the tentacles, papillate podium, integument, respiratory tree, and digestive tract and stained them for acid phosphatase (ACP), alkaline phosphatase (AKP), non-specific esterase (NSE) and peroxidase (POD) activity. The distribution and content of ACP, AKP, NSE, and POD differed among the tissues. The coelomic epithelium of the tentacle, papillate podium, and integument and the mucous layer of respiratory tree were positive for ACP activity. The coelomic epithelium and cuticular layer of the tentacle, papillate podium, and integument and the mucous layer and tunica externa of the respiratory tree and digestive tract stained positive or weakly positive for AKP activity. Almost all the epithelial tissues stained positive, strongly positive, or very strongly positive for NSE activity. The cuticular layer of the tentacle and integument and the mucous layer, tunica submucosa, and tunica externa of the respiratory tree and digestive tract stained positive for POD activity. We hypothesize that these enzymes play a role in the immune response in A. japonicus.

  3. The influence of powdered coconut water (ACP-318®) in in vitro maturation of canine oocytes.

    PubMed

    Silva, A E F; Cavalcante, L F; Rodrigues, B A; Rodrigues, J L

    2010-12-01

    The objective of this study was to determine the influence of powdered coconut water (ACP-318(®)) diluted in high glucose (11.0 mM) TCM199 in the achievement of nuclear in vitro maturation (IVM) of canine oocytes. Cumulus oocyte complexes (COCs) (n = 632) were randomly allocated into three experimental groups named as group 1 (control group), group 2 (5% powdered coconut water) and group 3 (10% powdered coconut water). The percentage of meiotic resumption (MR) (GVBD to MII) was 39.1% (81/207), 50.2% (108/215) and 46.6% (98/210) for groups 1, 2 and 3 respectively (p < 0.05). There were no differences in MR rates among groups 2 and 3. The medium with ACP-318(®) slightly enhanced the nuclear maturation of canine oocytes when a comparison was established with rates of maturation exhibited by oocytes in the experimental group 1 without ACP-318(®) (p < 0.05). The results suggest that oocytes' nuclear morphology integrity and meiosis achievement were positively influenced when exposed to high glucose TCM199 supplemented with 5% powdered coconut water. Further investigation must be performed for a better understanding of powdered coconut water influence in cellular events during IVM of dog oocytes.

  4. Method for wiring allocation and switch configuration in a multiprocessor environment

    DOEpatents

    Aridor, Yariv; Domany, Tamar; Frachtenberg, Eitan; Gal, Yoav; Shmueli, Edi; Stockmeyer, legal representative, Robert E.; Stockmeyer, Larry Joseph

    2008-07-15

    A method for wiring allocation and switch configuration in a multiprocessor computer, the method including employing depth-first tree traversal to determine a plurality of paths among a plurality of processing elements allocated to a job along a plurality of switches and wires in a plurality of D-lines, and selecting one of the paths in accordance with at least one selection criterion.

  5. Hydrogen-oxygen space shuttle ACPS thruster technology review

    NASA Technical Reports Server (NTRS)

    Gregory, J. W.; Herr, P. N.

    1972-01-01

    The generation of technology for injectors, cooled thrust chambers, valves, and ignition systems is discussed. The thrusters are designed to meet a unique and stringent set of requirements, including: long life for 100 mission reuses, high performance, light weight, ability to provide long duration firings as well as small impulse bits, ability to operate over wide ranges of propellant inlet conditions and to withstand reentry heating. The program has included evaluation of thrusters designed for ambient temperature and cold gaseous propellants at the vehicle interface.

  6. The Galley Parallel File System

    NASA Technical Reports Server (NTRS)

    Nieuwejaar, Nils; Kotz, David

    1996-01-01

    Most current multiprocessor file systems are designed to use multiple disks in parallel, using the high aggregate bandwidth to meet the growing I/0 requirements of parallel scientific applications. Many multiprocessor file systems provide applications with a conventional Unix-like interface, allowing the application to access multiple disks transparently. This interface conceals the parallelism within the file system, increasing the ease of programmability, but making it difficult or impossible for sophisticated programmers and libraries to use knowledge about their I/O needs to exploit that parallelism. In addition to providing an insufficient interface, most current multiprocessor file systems are optimized for a different workload than they are being asked to support. We introduce Galley, a new parallel file system that is intended to efficiently support realistic scientific multiprocessor workloads. We discuss Galley's file structure and application interface, as well as the performance advantages offered by that interface.

  7. Acyl-ACP thioesterases from macadamia (Macadamia tetraphylla) nuts: cloning, characterization and their impact on oil composition.

    PubMed

    Moreno-Pérez, Antonio J; Sánchez-García, Alicia; Salas, Joaquín J; Garcés, Rafael; Martínez-Force, Enrique

    2011-01-01

    The mechanisms by which macadamia nuts accumulate the unusual palmitoleic and asclepic acyl moieties, which constitute up to 20% of the fatty acids in some varieties, are still unknown. Acyl-acyl carrier protein (ACP) thioesterases (EC 3.1.2.14) are intraplastidial enzymes that terminate the synthesis of fatty acids in plants and that facilitate the export of the acyl moieties to the endoplasmic reticulum where they can be used in the production of glycerolipids. Here, we have investigated the possible role of acyl-ACP thioesterase activity in the composition of macadamia kernel oil. Accordingly, two acyl-ACP thioesterases were cloned from developing macadamia kernels, one of the FatA type and the other of the FatB type. These enzymes were heterologously expressed in Escherichia coli, and the recombinant thioesterases were purified, characterized kinetically and assayed with a variety of substrates, demonstrating the high specificity of macadamia FatA towards 16:1-ACP. Acyl-ACP thioesterase activity was also characterized in crude extracts from two different varieties of macadamia, Cate and Beaumont, which accumulate different amounts of n-7 fatty acids. The impact of acyl-ACP thioesterase activities on the oil composition of these kernels is discussed in the light of these results.

  8. Intravaginal artificial insemination in bitches using frozen/thawed semen after dilution in powdered coconut water (ACP-106c).

    PubMed

    Uchoa, D C; Silva, T F P; Mota Filho, A C; Silva, L D M

    2012-12-01

    The aim of this study was to evaluate powdered coconut water extender (ACP-106c; ACP Serviços Tecnológicos Ltda, ACP Biotecnologia, Fortaleza, Ceará, Brazil) as a diluent for freezing dog semen and the fertility after vaginal insemination of semen frozen therein. Ten ejaculates were collected from five dogs, evaluated fresh, diluted in ACP-106c, 10% egg yolk and 6% glycerol, cooled and frozen. In the first phase of the study, straws with frozen semen were thawed and immediately subjected to the same analysis as the fresh semen and, in addition, to Computer-Assisted Semen Analysis (CASA). In phase 2, 10 bitches that had been subjected to natural breeding during a preceding oestrous cycle were vaginally inseminated with thawed semen that had been re-diluted in ACP-106c. After thawing, a mean of 77% sperm motility was obtained through subjective analysis and 77.3% through CASA. Following artificial insemination, a 60% pregnancy rate was observed, resulting in a 50% parturition rate and a mean litter size of 3.4 (SEM 0.6), with 47.1% males and 52.9% females. ACP-106c can be successfully used for freezing canine semen, and vaginal deposition of such semen yields similar pregnancy rates to those reported in other studies.

  9. Enzymatic assembly of epothilones: the EpoC subunit and reconstitution of the EpoA-ACP/B/C polyketide and nonribosomal peptide interfaces.

    PubMed

    O'Connor, Sarah E; Chen, Huawei; Walsh, Christopher T

    2002-04-30

    The biosynthesis of epothilones, a family of hybrid polyketide (PK)/nonribosomal peptide (NRP) antitumor agents, provides an ideal system to study a hybrid PK/NRP natural product with significant biomedical value. Here the third enzyme involved in epothilone production, the five domain 195 kDa polyketide synthase (PKS) EpoC protein, has been expressed and purified from Escherichia coli. EpoC was combined with the first two enzymes of the epothilone biosynthesis pathway, the acyl carrier protein (ACP) domain of EpoA and EpoB, to reconstitute the early steps in epothilone biosynthesis. The acyltransferase (AT) domain of EpoC transfers the methylmalonyl moiety from methylmalonyl-CoA to the holo HS-acyl carrier protein (ACP) in an autoacylation reaction. The ketosynthase (KS) domain of EpoC decarboxylates the methylmalonyl-S-EpoC acyl enzyme to generate the carbon nucleophile that reacts with methylthiazolylcarboxyl-S-EpoB. The resulting condensation product can be reduced in the presence of NADPH by the ketoreductase (KR) domain of EpoC and then dehydrated by the dehydratase (DH) domain to produce the methylthiazolylmethylacrylyl-S-EpoC acyl enzyme intermediate that serves as the acyl donor for subsequent elongation of the epothilone chain. The acetyl-CoA donor can be replaced with propionyl-CoA, isobutyryl-CoA, and benzoyl-CoA and the acyl chains accepted by both EpoB and EpoC subunits to produce ethyl-, isopropyl-, and phenylthiazolylmethylacrylyl-S-EpoC acyl enzyme intermediates, suggesting that future combinatorial biosynthetic variations in epothilone assembly may be feasible. These results demonstrate in vitro reconstitution of both the PKS/NRPS interface (EpoA-ACP/B) and the NRPS/PKS interface (EpoB/C) in the assembly line for this antitumor natural product.

  10. Remineralizing efficacy of a CPP-ACP cream on enamel caries lesions in situ.

    PubMed

    Meyer-Lueckel, Hendrik; Wierichs, Richard J; Schellwien, Timo; Paris, Sebastian

    2015-01-01

    The aim of this double-blind, randomized, cross-over in situ study was to compare the remineralizing effects induced by the application of casein phosphopeptide-stabilized amorphous calcium phosphate complexes (CPP-ACP)-containing cream (without fluoride) after the use of fluoride toothpaste with the prolonged use of fluoride toothpaste on enamel caries lesions in situ. During each of three experimental legs of 4 weeks, 13 participants wore intra-oral mandibular appliances with 8 pre-demineralized bovine enamel specimens in the vestibular flanges mimicking either 'easily cleanable' or 'proximal' surfaces (n = 312). The three randomly allocated treatments were as follows: (1) application of CPP-ACP-containing cream (GC Tooth Mouse, non-fluoride) after the use of fluoride toothpaste (1,400 ppm NaF; TM), (2) prolonged application of fluoride toothpaste (1,400 ppm NaF; positive control, PC) and (3) prolonged application of fluoride-free toothpaste (negative control, NC). Additionally, one of each of the two flanges was brushed twice daily with the respective toothpaste. The differences in integrated mineral loss as assessed by transversal microradiography were calculated between values before and after the in situ period. Changes in mineral loss were analysed for those pairs of subgroups differing in only one of the three factors (intervention, brushing and position). The PC treatment induced a significantly higher mineral gain compared with the TM and NC treatments. No significant differences between TM and NC for both positions were observed. In conclusion, the additional use of a CPP-ACP-containing cream seems to be less efficacious in remineralizing caries lesions than the prolonged application of fluoride toothpaste.

  11. Combining CPP-ACP with fluoride: a synergistic remineralization potential of artificially demineralized enamel or not?

    NASA Astrophysics Data System (ADS)

    El-Sayad, I. I.; Sakr, A. K.; Badr, Y. A.

    2008-08-01

    Background and objective: Minimal intervention dentistry (MID) calls for early detection and remineralization of initial demineralization. Laser fluorescence is efficient in detecting changes in mineral tooth content. Recaldent is a product of casein phosphopeptide-amorphous calcium phosphate (CPP- ACP) which delivers calcium and phosphate ions to enamel. A new product which also contains fluoride is launched in United States. The remineralizing potential of CPP- ACP per se, or when combined with 0.22% Fl supplied in an oral care gel on artificially demineralised enamel using laser fluorescence was investigated. Methods: Fifteen sound human molars were selected. Mesial surfaces were tested using He-Cd laser beam at 441.5nm with 18mW power as excitation source on a suitable set-up based on Spex 750 M monochromator provided with PMT for detection of collected auto-fluorescence from sound enamel. Mesial surfaces were subjected to demineralization for ten days. The spectra from demineralized enamel were measured. Teeth were then divided according to the remineralizing regimen into three groups: group I recaldent per se, group II recaldent combined with fluoride gel and group III artificial saliva as a positive control. After following these protocols for three weeks, the spectra from remineralized enamel from the three groups were measured. The spectra of enamel auto-fluorescence were recorded and normalized to peak intensity at about 540 nm to compare between spectra from sound, demineralized and remineralized enamel surfaces. Results: A slight red shift was noticed in spectra from demineralized enamel, while a blue shift may occur in remineralized enamel. Group II showed the highest remineralizing potential. Conclusions: Combining fluoride with CPP-ACP had a synergistic effect on enamel remineralization. In addition, laser auto-fluorescence is an accurate technique for assessment of changes in tooth enamel minerals.

  12. Nonpreemptive run-time scheduling issues on a multitasked, multiprogrammed multiprocessor with dependencies, bidimensional tasks, folding and dynamic graphs

    SciTech Connect

    Miller, Allan Ray

    1987-05-01

    Increases in high speed hardware have mandated studies in software techniques to exploit the parallel capabilities. This thesis examines the effects a run-time scheduler has on a multiprocessor. The model consists of directed, acyclic graphs, generated from serial FORTRAN benchmark programs by the parallel compiler Parafrase. A multitasked, multiprogrammed environment is created. Dependencies are generated by the compiler. Tasks are bidimensional, i.e., they may specify both time and processor requests. Processor requests may be folded into execution time by the scheduler. The graphs may arrive at arbitrary time intervals. The general case is NP-hard, thus, a variety of heuristics are examined by a simulator. Multiprogramming demonstrates a greater need for a run-time scheduler than does monoprogramming for a variety of reasons, e.g., greater stress on the processors, a larger number of independent control paths, more variety in the task parameters, etc. The dynamic critical path series of algorithms perform well. Dynamic critical volume did not add much. Unfortunately, dynamic critical path maximizes turnaround time as well as throughput. Two schedulers are presented which balance throughput and turnaround time. The first requires classification of jobs by type; the second requires selection of a ratio value which is dependent upon system parameters. 45 refs., 19 figs., 20 tabs.

  13. Antimicrobial effect by extracts of rhizome of Alpinia officinarum Hance may relate to its inhibition of beta-ketoacyl-ACP reductase.

    PubMed

    Huang, Hui; Wu, Dan; Tian, Wei-Xi; Ma, Xiao-Feng; Wu, Xiao-Dong

    2008-06-01

    Inhibitory effects on bacterial growth showed that 40% ethanol extract of galangal (rhizome of Alpinia officinarum Hance) can inhibit Staphylococcus aureus, alpha-Hemolytic streptococcus, beta-Hemolytic streptococcus and Streptococcus pneumoniae. beta-ketoacyl-ACP reductase (FabG, EC.1.1.1.100) is a key enzyme in type II fatty acid synthase system in bacteria and catalyzes beta-ketoacyl-ACP reduction. The galangal extracts inhibited FabG with an IC(50) value of only 4.47 +/- 0.10 microg/mL and is more potent than other previously published inhibitors. Kinetics studies showed that the inhibition consisted of both reversible and irreversible inhibition. The extracts of galangal inhibit FabG in a competitive pattern against NADPH. So far, no inhibitor has been reported to exhibit irreversible inhibition of FabG, whereas the galangal ethanol extract can inhibit FabG irreversibly. The irreversible inhibition presented two phases. It is probable that the galangal extract inhibit FabG, thereby displaying antibacterial ability.

  14. ACP1 Genetic Polymorphism and Coronary Artery Disease: Evidence of Effects on Clinical Parameters of Cardiac Function

    PubMed Central

    Gloria-Bottini, Fulvia; Banci, Maria; Saccucci, Patrizia; Nardi, Paolo; Scognamiglio, Mattia; Papetti, Federica; Adanti, Sara; Magrini, Andrea; Pellegrino, Antonio; Bottini, Egidio; Chiariello, Luigi

    2013-01-01

    Background Kinases and phosphatases have an important role in the susceptibility and clinical variability of cardiac diseases. We have recently reported an association between a phosphoprotein phosphatase controlled by Acid Phosphatase locus 1 (ACP1), and Coronary artery disease (CAD) suggesting an effect on the susceptibility to this disease. In the present note we have investigated a possible role of ACP1 in the variability of clinical parameters of cardiac function. Methods We have studied 345 subjects admitted to Valmontone Hospital for cardiovascular diseases: 202 subjects with CAD and 143 without CAD, 53 subjects admitted to Cardiac Surgery Division of Tor Vergata University were also considered. Results In diabetic patients with CAD there is a significant negative association between Left ventricular ejection fraction (LVEF) and ACP1 S isoform concentration. Genotypes with high S isoform concentration show a lower value of LVEF as compared to genotypes with low S isoform concentration. We have also found a significant positive association between cNYHA class and ACP1 S isoform. After surgical intervention, in subjects with high S isoform concentration the decrease of LVEF is more marked as compared to subjects with low S isoform concentration. Overall these observations indicate that high S isoform activity has negative effects on cardiac function. The observation in patients undergoing cardiac surgery confirms the negative association between high S isoform activity and LVEF. Conclusions The present study suggests that ACP1 influences both susceptibility to CAD and clinical manifestations of the disease.

  15. Short-term storage of canine preantral ovarian follicles using a powdered coconut water (ACP)-based medium.

    PubMed

    Lima, G L; Costa, L L M; Cavalcanti, D M L P; Rodrigues, C M F; Freire, F A M; Fontenele-Neto, J D; Silva, A R

    2010-07-01

    The objective was to investigate the use of powdered coconut water (ACP)-based medium for short-term preservation of canine preantral follicles. Pairs of ovaries from mongrel bitches (n=9) were divided into fragments. One ovarian fragment, treated as a fresh control, was immediately fixed for histological analysis, whereas the other six ovarian fragments were stored either in phosphate-buffered saline (PBS; control group) or ACP medium in isothermal Styrofoam boxes containing biological ice packs. The boxes were sealed and opened only after 12, 24, or 36h. After opening each box, the ovarian fragments were submitted to histological analysis. In total, 12,302 preantral follicles were evaluated, with 64.5% primordial, 33.3% primary, and 2.3% secondary follicles. There were multiple oocytes in 1.3% of the follicles analyzed. At 24h, ACP was more efficient in preserving follicular morphology than PBS (P<0.05). Compared with the fresh control group, a significant reduction in the percentage of morphologically normal ovarian follicles was observed for PBS, starting at 24h; however, the decline started only at 36h for the ACP medium. During the experiment, the temperature inside the isothermal boxes increased from 3 to 9 degrees C (P<0.05), despite a constant room temperature. In conclusion, powdered coconut water (ACP) was an appropriate medium for short-term storage of canine preantral ovarian follicles.

  16. Acyl-ACP thioesterases from Camelina sativa: cloning, enzymatic characterization and implication in seed oil fatty acid composition.

    PubMed

    Rodríguez-Rodríguez, Manuel Fernando; Salas, Joaquín J; Garcés, Rafael; Martínez-Force, Enrique

    2014-11-01

    Acyl-acyl carrier protein (ACP) thioesterases are intraplastidial enzymes that terminate de novo fatty acid biosynthesis in the plastids of higher plants by hydrolyzing the thioester bond between ACP and the fatty acid synthesized. Free fatty acids are then esterified with coenzyme A prior to being incorporated into the glycerolipids synthesized through the eukaryotic pathway. Acyl-ACP thioesterases belong to the TE14 family of thioester-active enzymes and can be classified as FatAs and FatBs, which differ in their amino acid sequence and substrate specificity. Here, the FatA and FatB thioesterases from Camelina sativa seeds, a crop of interest in plant biotechnology, were cloned, sequenced and characterized. The mature proteins encoded by these genes were characterized biochemically after they were heterologously expressed in Escherichia coli and purified. C. sativa contained three different alleles of both the FatA and FatB genes. These genes were expressed most strongly in expanding tissues in which lipids are very actively synthesized, such as developing seed endosperm. The CsFatA enzyme displayed high catalytic efficiency on oleoyl-ACP and CsFatB acted efficiently on palmitoyl-ACP. The contribution of these two enzymes to the synthesis of C. sativa oil was discussed in the light of these results.

  17. Application of the Avionics Multiprocessor to Inertial Navigation.

    DTIC Science & Technology

    NAVIGATION COMPUTERS, * INERTIAL NAVIGATION ), DATA PROCESSING, MULTIPLE OPERATION, INPUT OUTPUT DEVICES, SPECIFICATIONS, COMMAND AND CONTROL SYSTEMS, AIRCRAFT EQUIPMENT, COMPUTER PROGRAMMING, TEST METHODS, THESES

  18. Utilizing Predictors for Efficient Thermal Management in Multiprocessor SoCs

    DTIC Science & Technology

    2009-10-01

    CMT SPARC processor,” in Proc. ISSCC, 2008, pp. 82–83. [34] A. Wald and J. Wolfowitz , “Optimum character of the sequential proba- bility ratio test...from IEEE Xplore. Restrictions apply. COŞKUN et al.: UTILIZING PREDICTORS FOR EFFICIENT THERMAL MANAGEMENT IN MULTIPROCESSOR SoCs 1505 values in...not introduce inaccuracy. yt + p∑ i=1 (ai yt−i) = et + q∑ i=1 (ci et−i). (1) An ARMA(p, q) model is described by (1). In the equation, yt is the value

  19. Parallel algorithms for geometric connected component labeling on a hypercube multiprocessor

    NASA Technical Reports Server (NTRS)

    Belkhale, K. P.; Banerjee, P.

    1992-01-01

    Different algorithms for the geometric connected component labeling (GCCL) problem are defined each of which involves d stages of message passing, for a d-dimensional hypercube. The major idea is that in each stage a hypercube multiprocessor increases its knowledge of domain. The algorithms under consideration include the QUAD algorithm for small number of processors and the Overlap Quad algorithm for large number of processors, subject to the locality of the connected sets. These algorithms differ in their run time, memory requirements, and message complexity. They were implemented on an Intel iPSC2/D4/MX hypercube.

  20. A simple executive for a fault-tolerant, real-time multiprocessor.

    NASA Technical Reports Server (NTRS)

    Filene, R. J.; Green, A. I.

    1971-01-01

    Description of a simple executive for operation with a fault-tolerant multiprocessor that is oriented toward application in an environment where the primary function is to provide real-time control. The primary executive function is to accept requests for jobs placed by other jobs or from peripheral equipment and then schedule their initiation in accordance with the request parameters. The executive is also brought into action when a processor fails, so that appropriate disposition may be made of the job that was running on the failed processor. Many architectural features intended to support this executive concept are included.

  1. A [32P]-NAD+-based method to identify and quantitate long residence time enoyl-ACP reductase inhibitors

    PubMed Central

    Yu, Weixuan; Neckles, Carla; Chang, Andrew; Bommineni, Gopal Reddy; Spagnuolo, Lauren; Zhang, Zhuo; Liu, Nina; Lai, Christina; Truglio, James; Tonge, Peter J.

    2015-01-01

    The classical methods for quantifying drug-target residence time (tR) use loss or regain of enzyme activity in progress curve kinetic assays. However, such methods become imprecise at very long residence times, mitigating the use of alternative strategies. Using the NAD(P)H-dependent FabI enoyl-ACP reductase as a model system, we developed a Penefsky column-based method for direct measurement of tR, where the off-rate of the drug was determined with radiolabeled [adenylate-32P] NAD(P+) cofactor. Twenty-three FabI inhibitors were analyzed and a mathematical model was used to estimate limits to the tR values of each inhibitor based on percent drug-target complex recovery following gel filtration. In general, this method showed good agreement with the classical steady state kinetic methods for compounds with tR values of 10-100 min. In addition, we were able to identify seven long tR inhibitors (100-1500 min) and to accurately determine their tR values. The method was then used to measure tR as a function of temperature, an analysis not previously possible using the standard kinetic approach due to decreased NAD(P)H stability at elevated temperatures. In general, a 4-fold difference in tR was observed when the temperature was increased from 25 °C to 37 °C . PMID:25684450

  2. Benchmarking Ada tasking on tightly coupled multiprocessor architectures

    NASA Technical Reports Server (NTRS)

    Collard, Philippe; Goforth, Andre; Marquardt, Matthew

    1989-01-01

    The development of benchmarks and performance measures for parallel Ada tasking is reported with emphasis on the macroscopic behavior of the benchmark across a set of load parameters. The application chosen for the study was the NASREM model for telerobot control, relevant to many NASA missions. The results of the study demonstrate the potential of parallel Ada in accomplishing the task of developing a control system for a system such as the Flight Telerobotic Servicer using the NASREM framework.

  3. Favoring the birth of female puppies after artificial insemination using chilled semen diluted with powdered coconut water (ACP-106c).

    PubMed

    Uchoa, Daniel Couto; da Silva, Ticiana Franco Pereira; Cardoso, Janaína de Fátima Saraiva; Mota Filho, Antônio Cavalcante; Jucá, Ricardo Parente; Silva, Alexandre Rodrigues; da Silva, Lúcia Daniel Machado

    2012-06-01

    The objective was to determine the effect of powdered coconut water extender (ACP-106c) on the proportion of female puppies born. Twenty French Bulldog bitches were subjected to natural mating (NM) and, during the subsequent two estrus periods, were bred by intravaginal artificial insemination (AI), using chilled semen (from the same males) diluted in Tris-egg yolk (AI-Tris) or ACP-106c (AI-ACP-106c). Fresh semen was cooled to 5 °C and maintained at that temperature for 6 h, rewarmed (37 °C for 30 s), and used for AI. Pregnancy and whelping rates following NM were both 100% and were both 90.0% following AI with either extender. Litter size (mean ± SD) was 5.4 ±1.1, 4.7 ± 2.0, and 5.1 ± 2.0 (P > 0.05) for NM, AI-Tris, and AI-ACP-106c, respectively. Furthermore, for these groups, the number of female vs. male puppies born were 2.6 ± 0.6 vs. 2.8 ± 1.0, 2.2 ± 1.0 vs. 2.5 ± 1.1, and 3.4 ± 1.6 vs. 1.8 ± 1.2 (P < 0.05 for AI-ACP-106c only). In conclusion, our hypothesis was supported; AI of semen in ACP-106c extender resulted in a significantly higher proportion of female puppies. Furthermore, this extender yielded acceptable litter size and rates of pregnancy and whelping.

  4. Speedup of linear stationary iteration processes in multiprocessor computers. I

    SciTech Connect

    Romm, Ya.E.

    1982-01-01

    The author considers two forms of stationary iteration process. Conditions are discussed under which the simpler process is slower than the other one on a multiprocessing computer, for the same method error. Estimates of the number of processors and the computation time are compared. Results are applied to Jacobi's method of solving systems of linear algebraic equations. 27 references.

  5. Evaluation of the Cedar memory system: Configuration of 16 by 16

    NASA Technical Reports Server (NTRS)

    Gallivan, K.; Jalby, W.; Wijshoff, H.

    1991-01-01

    Some basic results on the performance of the Cedar multiprocessor system are presented. Empirical results on the 16 processor 16 memory bank system configuration, which show the behavior of the Cedar system under different modes of operation are presented.

  6. Development of a Multiprocessor Linux Parallel Cluster for Magnetohydrodynamic Computations

    DTIC Science & Technology

    2006-03-01

    8217’IffJu~o7 ,iJstribUtion Uŕlc1ri Led 13. SUPPLEMENTARY NOTES 14. ABSTRACT The objective of the funded program was to establish a Beowulf -class...Wichita, KS 67260-0044 Abstract The objective of the funded program was to establish a Beowulf -class cluster system to support DoD sponsored research...the Beowulf cluster computers will result in a compressible DNS code applicable for transitional and turbulent MHD flow simulations at realistic

  7. A measurement-based study of concurrency in a multiprocessor

    NASA Technical Reports Server (NTRS)

    Mcguire, Patrick John

    1987-01-01

    A systematic measurement-based methodology for characterizing the amount of concurrency present in a workload, and the effect of concurrency on system performance indices such as cache miss rate and bus activity are developed. Hardware and software instrumentation of an Alliant FX/8 was used to obtain data from a real workload environment. Results show that 35% of the workload is concurrent, with the concurrent periods typically using all available processors. Measurements of periods of change in concurrency show uneven usage of processors during these times. Other system measures, including cache miss rate and processor bus activity, are analyzed with respect to the concurrency measures. Probability of a cache miss is seen to increase with concurrency. The change in cache miss rate is much more sensitive to the fraction of concurrent code in the worklaod than the number of processors active during concurrency. Regression models are developed to quantify the relationships between cache miss rate, bus activity, and the concurrency measures. The model for cache miss rate predicts an increase in the median miss rate value as much as 300% for a 100% increase in concurrency in the workload.

  8. Chaplain Documentation and the Electronic Medical Record: A Survey of ACPE Residency Programs.

    PubMed

    Tartaglia, Alexander; Dodd-McCue, Diane; Ford, Timothy; Demm, Charles; Hassell, Alma

    2016-01-01

    This study explores the extent to which chaplaincy departments at ACPE-accredited residency programs make use of the electronic medical record (EMR) for documentation and training. Survey data solicited from 219 programs with a 45% response rate and interview findings from 11 centers demonstrate a high level of usage of the EMR as well as an expectation that CPE residents document each patient/family encounter. Centers provided considerable initial training, but less ongoing monitoring of chaplain documentation. Centers used multiple sources to develop documentation tools for the EMR. One center was verified as having created the spiritual assessment component of the documentation tool from a peer reviewed published model. Interviews found intermittent use of the student chart notes for educational purposes. One center verified a structured manner of monitoring chart notes as a performance improvement activity. Findings suggested potential for the development of a standard documentation tool for chaplain charting and training.

  9. Cloning and characterization of a novel β-ketoacyl-ACP reductase from Comamonas testosteroni.

    PubMed

    Zhang, Hao; Ji, Ye; Wang, Yan; Zhang, Xiao; Yu, Yuanhua

    2015-06-05

    Comamonas testosteroni (C. testosteroni) is a gram negative bacterium which can use steroid as a carbon source and degrade steroid with about 20 special enzymes. Most of the enzymes are inducible enzymes. 3-Oxoacyl-ACP reductase (E.C. 1.1.1.100) alternatively known as β-ketoacyl-ACP reductase (BKR) is involved in fatty acid syntheses. DNA sequence comparison showed that BKR belongs to the short-chain alcohol dehydrogenase (SDR) family. Our results showed that BKR is necessary for the degradation of steroid hormones in C. testosteroni. The DNA fragment of the BKR gene was cloned into an expressional plasmid pET-15b. BKR protein was expressed with 6× His-tag on the N-terminus and the enzyme was purified with Ni-column. Antibodies against BKR were prepared and a new BKR quantitative ELISA was created in our laboratory. The purified BKR is a 30.6 kDa protein on SDS-PAGE. C. testosteroni was induced by testosterone, estradiol, estriol and cholesterol. The expression of BKR was detected with an ELISA. The result showed that the BKR expression could be induced by cholesterol and estriol but not by testosterone and estradiol. BKR gene knock-out mutant (M-C.T.) was prepared by homologous integration. High performance liquid chromatography (HPLC) was used to detect steroid hormone degradation in C. testosteroni ATCC11996 and BKR gene knock-out mutant. We proved that the M-C.T. eliminated of testosterone degradation. Degradations of cholesterol and estradiol were also decreased. We conclude that the novel BKR in C. testosteroni plays an important role in steroid degradation. This work provides some new information of SDR and steroid degradation in C. testosteroni.

  10. Oriented and Ordered Biomimetic Remineralization of the Surface of Demineralized Dental Enamel Using HAP@ACP Nanoparticles Guided by Glycine.

    PubMed

    Wang, Haorong; Xiao, Zuohui; Yang, Jie; Lu, Danyang; Kishen, Anil; Li, Yanqiu; Chen, Zhen; Que, Kehua; Zhang, Qian; Deng, Xuliang; Yang, Xiaoping; Cai, Qing; Chen, Ning; Cong, Changhong; Guan, Binbin; Li, Ting; Zhang, Xu

    2017-01-12

    Achieving oriented and ordered remineralization on the surface of demineralized dental enamel, thereby restoring the satisfactory mechanical properties approaching those of sound enamel, is still a challenge for dentists. To mimic the natural biomineralization approach for enamel remineralization, the biological process of enamel development proteins, such as amelogenin, was simulated in this study. In this work, carboxymethyl chitosan (CMC) conjugated with alendronate (ALN) was applied to stabilize amorphous calcium phosphate (ACP) to form CMC/ACP nanoparticles. Sodium hypochlorite (NaClO) functioned as the protease which decompose amelogenin in vivo to degrade the CMC-ALN matrix and generate HAP@ACP core-shell nanoparticles. Finally, when guided by 10 mM glycine (Gly), HAP@ACP nanoparticles can arrange orderly and subsequently transform from an amorphous phase to well-ordered rod-like apatite crystals to achieve oriented and ordered biomimetic remineralization on acid-etched enamel surfaces. This biomimetic remineralization process is achieved through the oriented attachment (OA) of nanoparticles based on non-classical crystallization theory. These results indicate that finding and developing analogues of natural proteins such as amelogenin involved in the biomineralization by natural macromolecular polymers and imitating the process of biomineralization would be an effective strategy for enamel remineralization. Furthermore, this method represents a promising method for the management of early caries in minimal invasive dentistry (MID).

  11. Design and synthesis of 2-pyridones as novel inhibitors of the Bacillus anthracis enoyl-ACP reductase.

    PubMed

    Tipparaju, Suresh K; Joyasawal, Sipak; Forrester, Sara; Mulhearn, Debbie C; Pegan, Scott; Johnson, Michael E; Mesecar, Andrew D; Kozikowski, Alan P

    2008-06-15

    Enoyl-ACP reductase (ENR), the product of the FabI gene, from Bacillus anthracis (BaENR) is responsible for catalyzing the final step of bacterial fatty acid biosynthesis. A number of novel 2-pyridone derivatives were synthesized and shown to be potent inhibitors of BaENR.

  12. Oriented and Ordered Biomimetic Remineralization of the Surface of Demineralized Dental Enamel Using HAP@ACP Nanoparticles Guided by Glycine

    NASA Astrophysics Data System (ADS)

    Wang, Haorong; Xiao, Zuohui; Yang, Jie; Lu, Danyang; Kishen, Anil; Li, Yanqiu; Chen, Zhen; Que, Kehua; Zhang, Qian; Deng, Xuliang; Yang, Xiaoping; Cai, Qing; Chen, Ning; Cong, Changhong; Guan, Binbin; Li, Ting; Zhang, Xu

    2017-01-01

    Achieving oriented and ordered remineralization on the surface of demineralized dental enamel, thereby restoring the satisfactory mechanical properties approaching those of sound enamel, is still a challenge for dentists. To mimic the natural biomineralization approach for enamel remineralization, the biological process of enamel development proteins, such as amelogenin, was simulated in this study. In this work, carboxymethyl chitosan (CMC) conjugated with alendronate (ALN) was applied to stabilize amorphous calcium phosphate (ACP) to form CMC/ACP nanoparticles. Sodium hypochlorite (NaClO) functioned as the protease which decompose amelogenin in vivo to degrade the CMC-ALN matrix and generate HAP@ACP core-shell nanoparticles. Finally, when guided by 10 mM glycine (Gly), HAP@ACP nanoparticles can arrange orderly and subsequently transform from an amorphous phase to well-ordered rod-like apatite crystals to achieve oriented and ordered biomimetic remineralization on acid-etched enamel surfaces. This biomimetic remineralization process is achieved through the oriented attachment (OA) of nanoparticles based on non-classical crystallization theory. These results indicate that finding and developing analogues of natural proteins such as amelogenin involved in the biomineralization by natural macromolecular polymers and imitating the process of biomineralization would be an effective strategy for enamel remineralization. Furthermore, this method represents a promising method for the management of early caries in minimal invasive dentistry (MID).

  13. Oriented and Ordered Biomimetic Remineralization of the Surface of Demineralized Dental Enamel Using HAP@ACP Nanoparticles Guided by Glycine

    PubMed Central

    Wang, Haorong; Xiao, Zuohui; Yang, Jie; Lu, Danyang; Kishen, Anil; Li, Yanqiu; Chen, Zhen; Que, Kehua; Zhang, Qian; Deng, Xuliang; Yang, Xiaoping; Cai, Qing; Chen, Ning; Cong, Changhong; Guan, Binbin; Li, Ting; Zhang, Xu

    2017-01-01

    Achieving oriented and ordered remineralization on the surface of demineralized dental enamel, thereby restoring the satisfactory mechanical properties approaching those of sound enamel, is still a challenge for dentists. To mimic the natural biomineralization approach for enamel remineralization, the biological process of enamel development proteins, such as amelogenin, was simulated in this study. In this work, carboxymethyl chitosan (CMC) conjugated with alendronate (ALN) was applied to stabilize amorphous calcium phosphate (ACP) to form CMC/ACP nanoparticles. Sodium hypochlorite (NaClO) functioned as the protease which decompose amelogenin in vivo to degrade the CMC-ALN matrix and generate HAP@ACP core-shell nanoparticles. Finally, when guided by 10 mM glycine (Gly), HAP@ACP nanoparticles can arrange orderly and subsequently transform from an amorphous phase to well-ordered rod-like apatite crystals to achieve oriented and ordered biomimetic remineralization on acid-etched enamel surfaces. This biomimetic remineralization process is achieved through the oriented attachment (OA) of nanoparticles based on non-classical crystallization theory. These results indicate that finding and developing analogues of natural proteins such as amelogenin involved in the biomineralization by natural macromolecular polymers and imitating the process of biomineralization would be an effective strategy for enamel remineralization. Furthermore, this method represents a promising method for the management of early caries in minimal invasive dentistry (MID). PMID:28079165

  14. Rhamnolipid and poly (hydrozyalkanoate) biosynthesis in 3-hydrozyacyl-ACP:COA transacylase (phaG) - knockouts of pseudomonas chloroaphis

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The 3-hydroxyacyl-ACP:CoA transacylase gene (phaG(Pc30761)) of P. chlororaphis NRRL B-30761 was cloned and analyzed. The nucleotide and translated amino-acid sequences of phaG(Pc30761) had 99% identities (at 100% query coverage) with the phaG gene of P. fluorescens O6. Two phaG-knockout strains of...

  15. Expression of Cyanobacterial Acyl-ACP Reductase Elevates the Triacylglycerol Level in the Red Alga Cyanidioschyzon merolae.

    PubMed

    Sumiya, Nobuko; Kawase, Yasuko; Hayakawa, Jumpei; Matsuda, Mami; Nakamura, Mami; Era, Atsuko; Tanaka, Kan; Kondo, Akihiko; Hasunuma, Tomohisa; Imamura, Sousuke; Miyagishima, Shin-ya

    2015-10-01

    Nitrogen starvation is known to induce the accumulation of triacylglycerol (TAG) in many microalgae, and potential use of microalgae as a source of biofuel has been explored. However, nitrogen starvation also stops cellular growth. The expression of cyanobacterial acyl-acyl carrier protein (ACP) reductase in the unicellular red alga Cyanidioschyzon merolae chloroplasts resulted in an accumulation of TAG, which led to an increase in the number and size of lipid droplets while maintaining cellular growth. Transcriptome and metabolome analyses showed that the expression of acyl-ACP reductase altered the activities of several metabolic pathways. The activities of enzymes involved in fatty acid synthesis in chloroplasts, such as acetyl-CoA carboxylase and pyruvate dehydrogenase, were up-regulated, while pyruvate decarboxylation in mitochondria and the subsequent consumption of acetyl-CoA by the tricarboxylic acid (TCA) cycle were down-regulated. Aldehyde dehydrogenase, which oxidizes fatty aldehydes to fatty acids, was also up-regulated in the acyl-ACP reductase expresser. This activation was required for the lipid droplet accumulation and metabolic changes observed in the acyl-ACP reductase expresser. Nitrogen starvation also resulted in lipid droplet accumulation in C. merolae, while cell growth ceased as in the case of other algal species. The metabolic changes that occur upon the expression of acyl-ACP reductase are quite different from those caused by nitrogen starvation. Therefore, there should be a method for further increasing the storage lipid level while still maintaining cell growth that is different from the metabolic response to nitrogen starvation.

  16. Microleakage of Three Types of Glass Ionomer Cement Restorations: Effect of CPP-ACP Paste Tooth Pretreatment

    PubMed Central

    Doozandeh, Maryam; Shafiei, Fereshteh; Alavi, Mostafa

    2015-01-01

    Statement of the Problem Casein phosphopeptide–amorphous calcium phosphate (CPP-ACP) increases the mineral content of tooth structure. This may enhance the chemical bonding of glass ionomer cements (GIC) and marginal sealing of their restorations. Purpose The aim of this study was to evaluate the effect of CPP-ACP paste pretreatment on the microleakage of three types of GIC. Materials and Method In this study, 72 Class V cavities were prepared on the buccal and lingual surfaces of molars with occlusal margins in enamel and gingival margins in root. The cavities were divided into 6 groups. Cavities in group 1 and 2 were restored with Fuji II, group 3 and 4 with Fuji II LC, and group 5 and 6 with Ketac N100 with respect to the manufacturers’ instructions. In groups 2, 4 and 6, CPP-ACP containing paste (MI paste) was placed into the cavities for 3 minutes before being filled with GIC. The teeth were thermocycled, stained with dye, sectioned, and scored for microleakage under stereomicroscope. Kruskall-Wallis and Chi-Square tests were used to analyze the data. Result There were no statistically significant differences between the control and the CPP-ACP pretreatment groups in enamel and dentin margins. In pairwise comparisons, there were no significant differences between the control and the experimental groups in enamel margin, and in dentin margins of G1 and 2, G5 and 6; however, a significant differences was detected in dentin margins between G3 and 4 (p= 0.041). Conclusion CPP-ACP paste pretreatment did not affect the microleakage of Fuji II and Ketac N100 in enamel or dentin, but decreased the microleakage in dentine margins of Fuji II LC when cavity conditioner was applied before surface treatment. PMID:26331147

  17. An in vitro study on the retentive strength of orthodontic bands cemented with CPP-ACP-containing GIC

    NASA Astrophysics Data System (ADS)

    Heravi, Farzin; Bagheri, Hossein; Rangrazi, Abdolrasoul; Mojtaba Zebarjad, Seyed

    2016-12-01

    Caries and white spot lesions around orthodontic bands are well known occurrences in fixed orthodontic treatment. There are several methods to overcome these problems. One of these includes modification of the band cement with remineralizing agents such as casein phosphopeptide-amorphous calcium phosphate (CPP-ACP). However, it should be evaluated that the cement modification has no significant negative effects on the retentive strength of the cemented orthodontic bands. In a continuation of our previous studies on the effects of the addition of CPP-ACP on the mechanical properties of luting and lining glass ionomer cement (GIC), this study aimed to investigate the retentive strength of orthodontic bands cemented with CPP-ACP containing GIC. Sixty extracted human pre molars teeth were embedded in acrylic resin and randomly divided into two groups of 30 specimens. In group 1, bands were cemented to the tooth with a GIC. In group 2, CPP-ACP (1.56% w/w) was added to the GIC before cementation. The retentive strength of each groups was determined with a universal testing machine. Further, the amount of cement remaining on the tooth surface was evaluated under a stereomicroscope, and the adhesive remnant index (ARI) score was determined. Results of this study showed that there were no significant differences between the groups in retentive strength and ARI score. In conclusion, modification of GIC with 1.56% w/w CPP-ACP had no negative effects on the retentive strength of the bands so can be used during fixed orthodontic treatment.

  18. Identification and expression of a stearoyl-ACP desaturase gene responsible for oleic acid accumulation in Xanthoceras sorbifolia seeds.

    PubMed

    Zhao, Na; Zhang, Yuan; Li, Qiuqi; Li, Rufang; Xia, Xinli; Qin, Xiaowei; Guo, Huihong

    2015-02-01

    Xanthoceras sorbifolia Bunge is an oilseed tree that grows well on barren lands in dry climate. Its seeds contain a large amount of oil rich in oleic acid (18:1(Δ9)) and linoleic acid (18:2(Δ9, 12)). However, the molecular regulation of oil biosynthesis in X. sorbifolia seeds is poorly understood. Stearoyl-ACP desaturase (SAD, EC 1.14.99.6) is a plastid-localized soluble desaturase that catalyzes the conversion of stearic acid (18:0) to oleic acid, which plays a key role in determining the ratio of saturated to unsaturated fatty acids. In this study, a full-length cDNA of XsSAD was isolated from developing X. sorbifolia embryos. The XsSAD open reading frame had 1194-bp, encoding a polypeptide of 397 amino acids. XsSAD expression in Escherichia coli cells resulted in increased 18:1(Δ9) level, confirming the biological activity of the enzyme encoded by XsSAD. XsSAD expression in Arabidopsis ssi2 mutants partially restored the morphological phenotype and effectively increased the 18:1(Δ9) level. The levels of other unsaturated fatty acids synthesized with 18:1(Δ9) as the substrate also increased to some degree. XsSAD in X. sorbifolia had a much higher expression in embryos than in leaves and petals. XsSAD expression also correlated well with the oleic acid, unsaturated fatty acid, and total fatty acid levels in developing embryos. These data suggested that XsSAD determined the synthesis of oleic acid and contributed to the accumulation of unsaturated fatty acid and total oil in X. sorbifolia seeds. A preliminary tobacco rattle virus-based virus-induced gene silencing system established in X. sorbifolia can also be helpful for further analyzing the functions of XsSAD and other oil synthesis-related genes in woody plants.

  19. Analysis of Photonic Networks for a Chip Multiprocessor Using Scientific Applications

    SciTech Connect

    Kamil, Shoaib A; Hendry, Gilbert; Biberman, Aleksandr; Chan, Johnnie; Lee, Benjamin G.; Mohiyuddin, Marghoob; Jain, Ankit; Bergman, Keren; Carloni, Luca; Kubiatowicz, John; Oliker, Leonid; Shalf, John

    2009-01-31

    As multiprocessors scale to unprecedented numbers of cores in order to sustain performance growth, it is vital that these gains are not nullified by high energy consumption from inter-core communication. With recent advances in 3D Integration CMOS technology, the possibility for realizing hybrid photonic-electronic networks-on-chip warrants investigating real application traces on functionally comparable photonic and electronic network designs. We present a comparative analysis using both synthetic benchmarks as well as real applications, run through detailed cycle accurate models implemented under the OMNeT++ discrete event simulation environment. Results show that when utilizing standard process-to-processor mapping methods, this hybrid network can achieve 75X improvement in energy efficiency for synthetic benchmarks and up to 37X improvement for real scientific applications, defined as network performance per energy spent, over an electronic mesh for large messages across a variety of communication patterns.

  20. SYMNET: an optical interconnection network for scalable high-performance symmetric multiprocessors.

    PubMed

    Louri, Ahmed; Kodi, Avinash Karanth

    2003-06-10

    We address the primary limitation of the bandwidth to satisfy the demands for address transactions in future cache-coherent symmetric multiprocessors (SMPs). It is widely known that the bus speed and the coherence overhead limit the snoop/address bandwidth needed to broadcast address transactions to all processors. As a solution, we propose a scalable address subnetwork called symmetric multiprocessor network (SYMNET) in which address requests and snoop responses of SMPs are implemented optically. SYMNET not only has the ability to pipeline address requests, but also multiple address requests from different processors can propagate through the address subnetwork simultaneously. This is in contrast with all electrical bus-based SMPs, where only a single request is broadcast on the physical address bus at any given point in time. The simultaneous propagation of multiple address requests in SYMNET increases the available address bandwidth and lowers the latency of the network, but the preservation of cache coherence can no longer be maintained with the usual fast snooping protocols. A modified snooping cache-coherence protocol, coherence in SYMNET (COSYM) is introduced to solve the coherence problem. We evaluated SYMNET with a subset of Splash-2 benchmarks and compared it with the electrical bus-based MOESI (modified, owned, exclusive, shared, invalid) protocol. Our simulation studies have shown a 5-66% improvement in execution time for COSYM as compared with MOESI for various applications. Simulations have also shown that the average latency for a transaction to complete by use of COSYM protocol was 5-78% better than the MOESI protocol. SYMNET can scale up to hundreds of processors while still using fast snooping-based cache-coherence protocols, and additional performance gains may be attained with further improvement in optical device technology.

  1. Targeting InhA, the FASII Enoyl-ACP Reductase: SAR Studies on Novel Inhibitor Scaffolds

    PubMed Central

    Pan, Pan; Tonge, Peter J.

    2015-01-01

    The bacterial type II fatty acid biosynthesis (FASII) pathway is an essential but unexploited target for drug discovery. In this review we summarize SAR studies on inhibitors of InhA, the enoyl-ACP reductase from the FASII pathway in M. tuberculosis. Inhibitor scaffolds that are described include the diaryl ethers, pyrrolidine carboxamides, piperazine indoleformamides, pyrazoles, arylamides, fatty acids, and imidazopiperidines, all of which form ternary complexes with InhA and the NAD cofactor, as well as isoniazid and the diazaborines which covalently modify the cofactor. Analysis of the structural data has enabled the development of a common binding mode for the ternary complex inhibitors, which includes a hydrogen bond network, a large hydrophobic pocket and a third ‘size-limited’ binding area comprised of both polar and non-polar groups. A critical factor in InhA inhibition involves ordering of the substrate binding loop, located close to the active site, and a direct link is proposed between loop ordering and slow onset enzyme inhibition. Slow onset inhibitors have long residence times on the enzyme target, a property that is of critical importance for in vivo activity. PMID:22283812

  2. The sex-peptide gene (Acp70A) is duplicated in Drosophila subobscura.

    PubMed

    Cirera, S; Aguadé, M

    1998-04-14

    A 3.1-kb region of Drosphila subobscura homologous to the Acp70A region of D. melanogaster, which contains the sex-peptide gene, was cloned and sequenced. This region contains an approximately 600-bp duplication that includes the sex-peptide and its 5' and 3' flanking regions. The preproteins are 54 and 56 amino acids long, respectively (as compared to 55 amino acids in D. melanogaster), and each includes a 19-amino-acid-long signal peptide. The C-terminal part of the mature peptide is highly conserved between D. melanogaster and the two copies of D. subobscura. In this species, both copies of the gene are transcribed and, like in D. melangaster, only expressed in males. The duplicated region includes 300 bp upstream of the gene that would therefore seem sufficient for their expression in males. This region presents at its 5' end a stretch 93-bp that has a high similarity with the corresponding region of D. melanogaster and could be part of a still unidentified regulatory element of these genes.

  3. Results of Second Outdoor Comparison Between Absolute Cavity Pyrgeometer (ACP) and Infrared Integrating Sphere (IRIS) Radiometer at PMOD (Presentation)

    SciTech Connect

    Reda, I.; Grobner, J.; Wacker, S.

    2014-01-01

    The Absolute Cavity Pyrgeometer (ACP) and InfraRed Integrating Sphere radiometer (IRIS) are developed to establish a world reference for calibrating pyrgeometers with traceability to SI units. The two radiometers are un-windowed with negligible spectral dependence, and traceable to SI units through the temperature scale (ITS-90). The second outdoor comparison between the two designs was held from September 30 to October 11, 2013 at the Physikalisch-Metorologisches Observatorium Davos (PMOD). The difference between the irradiance measured by ACP and that of the IRIS was within 1 W/m2 (3 IRISs: PMOD + Australia + Germany). From the first and second comparisons, a difference of 4-6 W/m2 was observed between the irradiance measured by ACP&IRIS and that of the interim World Infrared Standard Group (WISG). This presentation includes results from the first and second comparison in an effort to establish the world reference for pyrgeometer calibrations, a key deliverable for the World Meteorological Organization (WMO), and the DOE-ASR.

  4. Structural analysis and interaction studies of acyl-carrier protein (acpP) of Staphylococcus aureus, an extraordinarily thermally stable protein.

    PubMed

    Volk, Kathrin; Breunig, Sven D; Rid, Raphaela; Herzog, Julia; Bräuer, Maria; Hundsberger, Harald; Klein, Christian; Müller, Norbert; Önder, Kamil

    2017-01-01

    Acyl-carrier-protein (acpP) is an essential protein in fatty acid biosynthesis of Staphylococcus aureus [Cronan, J.E. and Thomas, J. (2009). Complex enzymes in microbial natural product biosynthesis, part B: polyketides, aminocoumarins and carbohydrates.

  5. Genomic structures and characterization of the 5'-flanking regions of acyl carrier protein and Delta4-palmitoyl-ACP desaturase genes from Coriandrum sativum.

    PubMed

    Kim, Mi Jung; Shin, Jeong Sheop; Kim, Jeong-Kook; Suh, Mi Chung

    2005-09-25

    The seed-specific or seed-predominant promoters of acyl carrier protein (Cs-ACP1) and Delta4-palmitoyl-acyl carrier protein desaturase (Cs-4PAD) genes, which are involved in the biosynthesis of petroselinic acid, were isolated from coriander (Coriandrum sativum) and analyzed in coriander endosperms and transgenic Arabidopsis. The expression of Cs-ACP1 and Cs-4PAD genes was coordinately regulated during seed development.

  6. Effects of the SARM ACP-105 on rotorod performance and cued fear conditioning in sham-irradiated and irradiated female mice.

    PubMed

    Dayger, Catherine; Villasana, Laura; Pfankuch, Timothy; Davis, Matthew; Raber, Jacob

    2011-03-24

    Female mice are more susceptible to radiation-induced cognitive changes than male mice. Previously, we showed that, in female mice, androgens antagonize age-related cognitive decline in aged wild-type mice and androgens and selective androgen receptor modulators (SARMs) antagonize cognitive changes induced by human apolipoprotein E4, a risk factor for developing age-related cognitive decline. In this study, the potential effects of the SARM ACP-105 were assessed in female mice that were either sham-irradiated or irradiated with ¹³⁷Cesium at a dose of 10Gy. Behavioral testing started 2 weeks following irradiation. Irradiation impaired sensorimotor function in vehicle-treated mice but not in ACP-105-treated mice. Irradiation impaired cued fear conditioning and ACP-105 enhanced fear conditioning in sham-irradiated and irradiated mice. When immunoreactivity for microtubule-associated protein 2 was assessed in the cortex of sham-irradiated mice, there was a brain area × ACP-105 interaction. While ACP-105 reduced MAP-2 immunoreactivity in the sensorimotor cortex, there was a trend towards increased MAP-2 immunoreactivity in the enthorhinal cortex. No effect on MAP-2 immunoreactivity was seen in the irradiated cortex or sham-irradiated or irradiated hippocampus. Thus, there are relatively early radiation-induced behavioral changes in female mice and reduced MAP-2 levels in the sensorimotor cortex following ACP-105 treatment might contribute to enhanced rotorod performance.

  7. Production and purification of refolded recombinant Plasmodium falciparum beta-ketoacyl-ACP reductase from inclusion bodies.

    PubMed

    Karmodiya, Krishanpal; Srivastav, Ratnesh Kumar; Surolia, Namita

    2005-07-01

    A recombinant form of Plasmodium falciparum beta-ketoacyl-ACP reductase (PfFabG) was overexpressed in Escherichia coli BL-21 codon plus (DE3). The resulting insoluble inclusion bodies were separated from cellular debris by extensive washing with buffer containing 0.05% Tween 20 and solubilized by homogenization with 8 M urea. Attempts to refold PfFabG from solubilized inclusion bodies employing Rotofor (separation based on different pIs of proteins in a mixture) followed by Ni(2+) or cation exchange chromatography were not successful either by bringing down the urea concentration instantaneously, stepwise, or by dialysis. Denatured PfFabG was therefore initially purified by cation exchange chromatography and was then correctly refolded at a final concentration of 100-200 microg/ml in a 20 mM Na-acetate buffer, pH 5.3, with 300 mM NaCl, 10% glycerol, and 0.05% Tween 20. The protein was found to be properly folded only in the presence of the cofactor NADPH and salt at a concentration 300 mM by drop dilution method at 2-8 degrees C for 12 h. The purified final product was >98% pure by denaturing gel electrophoresis. The purified protein was biologically active in a standard enzymatic assay using acetoacetyl-CoA as a substrate. The enzyme was found to be stable up to fourth day of purification and glycerol was found to stabilize enzyme activity for several weeks, during storage. This effort paves the way for elucidation of the structure-function correlations for PfFabG as well as exploration of the enzyme for developing inhibitors against it for combating malaria.

  8. Dentinal hypersensitivity: A comparative clinical evaluation of CPP-ACP F, sodium fluoride, propolis, and placebo

    PubMed Central

    Madhavan, Souparna; Nayak, Moksha; Shenoy, Amarnath; Shetty, Rajesh; Prasad, Krishna

    2012-01-01

    Background: Dentine hypersensitivity is a transient condition that often resolves with the natural sclerotic obturation of dentinal tubules. A potent topically applied in-office desensitizing treatment is indicated as the choice of treatment when dentine hypersensitivity is localized to one or two teeth. Aim: The present study aimed to evaluate and compare the clinical efficiency of CPP-ACP F, sodium fluoride, propolis, and distilled water that was used as placebo in treating dentinal hypersensitivity. Materials and Methods: 120 patients aged 20–40 years reporting with dentinal hypersensitivity in relation to canine, premolar and molars with erosion, abrasion, and gingival recession were randomly assigned to four groups of 30 patients each. Response to air jet and tactile stimuli were measured using visual analogue scale initially on 1st, 7th, 15th, 28th, 60th, and final assessment was done on the 90th day. Statistical Analysis: A statistical analysis was done using Anova test (Fischer's test) and Tukey HSD test for multicomparison. Results: The teeth treated with the test group showed decrease in the mean hypersensitivity values compared to control group, over a period of three months. The results showed propolis to be most efficient in treating dentinal hypersensitivity and CPP- ACPF showed to be the least efficient. Conclusion: All test groups were effective in reducing dentinal hypersensitivity, although they differed in rapidity of action over the period of 3 months. Further studies can be done using advanced materials and techniques. Multiple therapeutic modalities have been developed to treat dentinal hypersensitivity including products that impede nerve conduction of pain stimulus, products that mechanically occlude dentinal tubules, and calcium containing products designed to create plugs in the tubules utilizing a demineralization mechanism. PMID:23112475

  9. Avoiding and tolerating latency in large-scale next-generation shared-memory multiprocessors

    NASA Technical Reports Server (NTRS)

    Probst, David K.

    1993-01-01

    A scalable solution to the memory-latency problem is necessary to prevent the large latencies of synchronization and memory operations inherent in large-scale shared-memory multiprocessors from reducing high performance. We distinguish latency avoidance and latency tolerance. Latency is avoided when data is brought to nearby locales for future reference. Latency is tolerated when references are overlapped with other computation. Latency-avoiding locales include: processor registers, data caches used temporally, and nearby memory modules. Tolerating communication latency requires parallelism, allowing the overlap of communication and computation. Latency-tolerating techniques include: vector pipelining, data caches used spatially, prefetching in various forms, and multithreading in various forms. Relaxing the consistency model permits increased use of avoidance and tolerance techniques. Each model is a mapping from the program text to sets of partial orders on program operations; it is a convention about which temporal precedences among program operations are necessary. Information about temporal locality and parallelism constrains the use of avoidance and tolerance techniques. Suitable architectural primitives and compiler technology are required to exploit the increased freedom to reorder and overlap operations in relaxed models.

  10. In situ Effect of Chewing Gum with and without CPP-ACP on Enamel Surface Hardness Subsequent to ex vivo Acid Challenge.

    PubMed

    Jordão, M C; Alencar, C R B; Mesquita, I M; Buzalaf, M A R; Magalhães, A C; Machado, M A A M; Honório, H M; Rios, D

    2016-01-01

    The erosion-protective effect of casein phosphopeptide-amorphous calcium phosphate (CPP-ACP) is controversial. This study aimed to investigate the ability of CPP-ACP chewing gum to prevent a single event of erosive demineralization in situ. Bovine enamel blocks (n = 120) were randomly assigned to 3 phases according to the baseline surface hardness: phase I (PI) - chewing gum with CPP-ACP, phase II (PII) - chewing gum without CPP-ACP, and control phase (PIII) - salivary effect without stimulation (no gum). Nineteen volunteers participated in this study during 3 crossover phases of 2 h. In PI and PII, the volunteers wore intraoral palatal appliances for 120 min and chewed a unit of the corresponding chewing gum for the final 30 min. In the control phase the volunteers wore the appliance for 2 h, without chewing gum. Immediately after intraoral use, the appliances were extraorally immersed in a cola drink for 5 min to promote erosive demineralization. The percentage of surface hardness loss was calculated. The data were analyzed by ANOVA models and Tukey's test. Lower enamel hardness loss was found after the use of chewing gum with CPP-ACP (PI: 32.7%) and without CPP-ACP (PII: 33.5%) compared to the salivary effect without stimulation (PIII: 39.8%) (p < 0.05). There was no difference between PI and PII (p > 0.05). The results suggest that the use of chewing gum immediately before an erosive demineralization can diminish enamel hardness loss. However, the presence of CPP-ACP in the chewing gum cannot enhance this protective effect.

  11. Effect of CPP-ACP on the remineralization of acid-eroded human tooth enamel: nanomechanical properties and microtribological behaviour study

    NASA Astrophysics Data System (ADS)

    Zheng, L.; Zheng, J.; Zhang, Y. F.; Qian, L. M.; Zhou, Z. R.

    2013-10-01

    Casein phosphopeptide-stabilized amorphous calcium phosphate (CPP-ACP) has been used to enhance tooth remineralization in the dental clinic. But the contribution of CPP-ACP to the remineralization of acid-eroded human tooth enamel is of widespread controversy. To confirm the application potential of CPP-ACP in the remineralization repair of tooth erosion caused by acid-attack, the effect of remineralization in vitro in 2% w/v CPP-ACP solution on the acid-eroded human tooth enamel was investigated in this study. The repair of surface morphology and the improvement of nanomechanical and microtribological properties were characterized with laser confocal scanning microscope, scanning electron microscope, nanoindentation tester and nanoscratch tester. Results showed that a layer of uneven mineral deposits, which were mainly amorphous calcium phosphate (ACP) in all probability, was observed on the acid-eroded enamel surface after remineralization. Compared with the acid-eroded enamel surface, the nanoindentation hardness and Young's modulus of the remineralized enamel surface obviously increased. Both the friction coefficient and wear volume of the acid-eroded enamel surface decreased after remineralization. However, both the nanomechanical and the anti-wear properties of the remineralized enamel surface were still inferior to those of original enamel surface. In summary, tooth damage caused by acid erosion could be repaired by remineralization in CPP-ACP solution, but the repair effect, especially on the nanomechanical and anti-wear properties of the acid-eroded enamel, was limited. These results would contribute to a further exploration of the remineralization potential of CPP-ACP and a better understanding of the remineralization repair mechanism for acid-eroded human tooth enamel.

  12. Input/Output operations for hybrid data-flow/control-flow systems

    SciTech Connect

    Evripidou, P.; Gaudiot, J.L.

    1991-12-31

    Hybrid data-flow/control-flow system combine the advantages of the data-flow model: functionality and tolerance to communication and memory latencies with the efficient instruction scheduling of the control-flow model. The absence of global state in such hybrid multiprocessors and multiprocessors in general renders the implementation of state tasks such as Input/Output operations very difficult to implement. A distributed file-pointer scheme for incorporations I/O operations onto the data-flow model has been developed. A dependency detection algorithm detects and classify cases of potential access conflicts. A conflict resolution data-flow graph is then created which at execution time safely distributes file-pointers to the I/O actors. This scheme has also been implemented on a hybrid a data-flow control-flow multiprocessor: the Decoupled Data-Driven Multiprocessor with Variable Resolution Actors.

  13. Systems analysis of the space shuttle. [communication systems, computer systems, and power distribution

    NASA Technical Reports Server (NTRS)

    Schilling, D. L.; Oh, S. J.; Thau, F.

    1975-01-01

    Developments in communications systems, computer systems, and power distribution systems for the space shuttle are described. The use of high speed delta modulation for bit rate compression in the transmission of television signals is discussed. Simultaneous Multiprocessor Organization, an approach to computer organization, is presented. Methods of computer simulation and automatic malfunction detection for the shuttle power distribution system are also described.

  14. Polynomial algorithms for multiprocessor scheduling with a small number of job lengths

    SciTech Connect

    McCormick, S.T.; Smallwood, S.R.; Spieksma, F.C.R.

    1997-06-01

    The following problem was originally motivated by a question arising in scheduling maintenance periods for aircraft. Each maintenance period is a job, and the maintenance facilities are machines. In this context, there are very few different types of maintenances performed, so it is natural to consider the problem with only a small, fixed number C of different types of jobs. Each job type has a processing time, and each machine is available for the same length of time. A machine can handle at most one job at a time, all jobs are released at time zero, there are no due dates or precedence constraints, and preemption is not allowed. The question is whether it is possible to finish all jobs. We call this problem the Multiprocessor Scheduling Problem with C job lengths (MSPC). Scheduling problems such as MSPC where we can partition the jobs into a relatively few types such that all jobs of each type are identical are often called high-multiplicity problems. High-multiplicity problems are interesting because their input is very compact: the input to MSPC consists of only 2C + 2 numbers. For the case C = 2 we present a polynomial-time algorithm. We show that this algorithm produces a schedule that uses at most three different one-machine schedules, the minimum possible number. Further, we extend this algorithm to the case of machine-dependent deadlines and to a multi-parametric case. Finally, we discuss why our approach appears not to extend to the case C > 2.

  15. The hierarchical spatial decomposition of three-dimensional particle- in-cell plasma simulations on MIMD distributed memory multiprocessors

    SciTech Connect

    Walker, D.W.

    1992-07-01

    The hierarchical spatial decomposition method is a promising approach to decomposing the particles and computational grid in parallel particle-in-cell application codes, since it is able to maintain approximate dynamic load balance while keeping communication costs low. In this paper we investigate issues in implementing a hierarchical spatial decomposition on a hypercube multiprocessor. Particular attention is focused on the communication needed to update guard ring data, and on the load balancing method. The hierarchical approach is compared with other dynamic load balancing schemes.

  16. Production of long chain alcohols and alkanes upon coexpression of an acyl-ACP reductase and aldehyde-deformylating oxgenase with a bacterial type-I fatty acid synthase in E. coli

    DOE PAGES

    Coursolle, Dan; Shanklin, John; Lian, Jiazhang; ...

    2015-06-23

    Microbial long chain alcohols and alkanes are renewable biofuels that could one day replace petroleum-derived fuels. Here we report a novel pathway for high efficiency production of these products in Escherichia coli strain BL21(DE3). We first identified the acyl-ACP reductase/aldehyde deformylase combinations with the highest activity in this strain. Next, we used catalase coexpression to remove toxic byproducts and increase the overall titer. Finally, by introducing the type-I fatty acid synthase from Corynebacterium ammoniagenes, we were able to bypass host regulatory mechanisms of fatty acid synthesis that have thus far hampered efforts to optimize the yield of acyl-ACP-derived products inmore » BL21(DE3). When all these engineering strategies were combined with subsequent optimization of fermentation conditions, we were able to achieve a final titer around 100 mg/L long chain alcohol/alkane products including a 57 mg/L titer of pentadecane, the highest titer reported in E. coli BL21(DE3) to date. The expression of prokaryotic type-I fatty acid synthases offer a unique strategy to produce fatty acid-derived products in E. coli that does not rely exclusively on the endogenous type-II fatty acid synthase system.« less

  17. Production of long chain alcohols and alkanes upon coexpression of an acyl-ACP reductase and aldehyde-deformylating oxygenase with a bacterial type-I fatty acid synthase in E. coli.

    PubMed

    Coursolle, Dan; Lian, Jiazhang; Shanklin, John; Zhao, Huimin

    2015-09-01

    Microbial long chain alcohols and alkanes are renewable biofuels that could one day replace petroleum-derived fuels. Here we report a novel pathway for high efficiency production of these products in Escherichia coli strain BL21(DE3). We first identified the acyl-ACP reductase/aldehyde deformylase combinations with the highest activity in this strain. Next, we used catalase coexpression to remove toxic byproducts and increase the overall titer. Finally, by introducing the type-I fatty acid synthase from Corynebacterium ammoniagenes, we were able to bypass host regulatory mechanisms of fatty acid synthesis that have thus far hampered efforts to optimize the yield of acyl-ACP-derived products in BL21(DE3). When all these engineering strategies were combined with subsequent optimization of fermentation conditions, we were able to achieve a final titer around 100 mg L(-1) long chain alcohol/alkane products including a 57 mg L(-1) titer of pentadecane, the highest titer reported in E. coli BL21(DE3) to date. The expression of prokaryotic type-I fatty acid synthases offer a unique strategy to produce fatty acid-derived products in E. coli that does not rely exclusively on the endogenous type-II fatty acid synthase system.

  18. Production of long chain alcohols and alkanes upon coexpression of an acyl-ACP reductase and aldehyde-deformylating oxgenase with a bacterial type-I fatty acid synthase in E. coli

    SciTech Connect

    Coursolle, Dan; Shanklin, John; Lian, Jiazhang; Zhao, Huimin

    2015-06-23

    Microbial long chain alcohols and alkanes are renewable biofuels that could one day replace petroleum-derived fuels. Here we report a novel pathway for high efficiency production of these products in Escherichia coli strain BL21(DE3). We first identified the acyl-ACP reductase/aldehyde deformylase combinations with the highest activity in this strain. Next, we used catalase coexpression to remove toxic byproducts and increase the overall titer. Finally, by introducing the type-I fatty acid synthase from Corynebacterium ammoniagenes, we were able to bypass host regulatory mechanisms of fatty acid synthesis that have thus far hampered efforts to optimize the yield of acyl-ACP-derived products in BL21(DE3). When all these engineering strategies were combined with subsequent optimization of fermentation conditions, we were able to achieve a final titer around 100 mg/L long chain alcohol/alkane products including a 57 mg/L titer of pentadecane, the highest titer reported in E. coli BL21(DE3) to date. The expression of prokaryotic type-I fatty acid synthases offer a unique strategy to produce fatty acid-derived products in E. coli that does not rely exclusively on the endogenous type-II fatty acid synthase system.

  19. Metabolic engineering of fatty acyl-ACP reductase-dependent pathway to improve fatty alcohol production in Escherichia coli.

    PubMed

    Liu, Ran; Zhu, Fayin; Lu, Lei; Fu, Aisi; Lu, Jiankai; Deng, Zixin; Liu, Tiangang

    2014-03-01

    Fatty alcohols are important components of surfactants and cosmetic products. The production of fatty alcohols from sustainable resources using microbial fermentation could reduce dependence on fossil fuels and greenhouse gas emission. However, the industrialization of this process has been hampered by the current low yield and productivity of this synthetic pathway. As a result of metabolic engineering strategies, an Escherichia coli mutant containing Synechococcus elongatus fatty acyl-ACP reductase showed improved yield and productivity. Proteomics analysis and in vitro enzymatic assays showed that endogenous E. coli AdhP is a major contributor to the reduction of fatty aldehydes to fatty alcohols. Both in vitro and in vivo results clearly demonstrated that the activity and expression level of fatty acyl-CoA/ACP reductase is the rate-limiting step in the current protocol. In 2.5-L fed-batch fermentation with glycerol as the only carbon source, the most productive E. coli mutant produced 0.75 g/L fatty alcohols (0.02 g fatty alcohol/g glycerol) with a productivity of up to 0.06 g/L/h. This investigation establishes a promising synthetic pathway for industrial microbial production of fatty alcohols.

  20. SOS2 and ACP1 Loci Identified through Large-Scale Exome Chip Analysis Regulate Kidney Development and Function.

    PubMed

    Li, Man; Li, Yong; Weeks, Olivia; Mijatovic, Vladan; Teumer, Alexander; Huffman, Jennifer E; Tromp, Gerard; Fuchsberger, Christian; Gorski, Mathias; Lyytikäinen, Leo-Pekka; Nutile, Teresa; Sedaghat, Sanaz; Sorice, Rossella; Tin, Adrienne; Yang, Qiong; Ahluwalia, Tarunveer S; Arking, Dan E; Bihlmeyer, Nathan A; Böger, Carsten A; Carroll, Robert J; Chasman, Daniel I; Cornelis, Marilyn C; Dehghan, Abbas; Faul, Jessica D; Feitosa, Mary F; Gambaro, Giovanni; Gasparini, Paolo; Giulianini, Franco; Heid, Iris; Huang, Jinyan; Imboden, Medea; Jackson, Anne U; Jeff, Janina; Jhun, Min A; Katz, Ronit; Kifley, Annette; Kilpeläinen, Tuomas O; Kumar, Ashish; Laakso, Markku; Li-Gao, Ruifang; Lohman, Kurt; Lu, Yingchang; Mägi, Reedik; Malerba, Giovanni; Mihailov, Evelin; Mohlke, Karen L; Mook-Kanamori, Dennis O; Robino, Antonietta; Ruderfer, Douglas; Salvi, Erika; Schick, Ursula M; Schulz, Christina-Alexandra; Smith, Albert V; Smith, Jennifer A; Traglia, Michela; Yerges-Armstrong, Laura M; Zhao, Wei; Goodarzi, Mark O; Kraja, Aldi T; Liu, Chunyu; Wessel, Jennifer; Boerwinkle, Eric; Borecki, Ingrid B; Bork-Jensen, Jette; Bottinger, Erwin P; Braga, Daniele; Brandslund, Ivan; Brody, Jennifer A; Campbell, Archie; Carey, David J; Christensen, Cramer; Coresh, Josef; Crook, Errol; Curhan, Gary C; Cusi, Daniele; de Boer, Ian H; de Vries, Aiko P J; Denny, Joshua C; Devuyst, Olivier; Dreisbach, Albert W; Endlich, Karlhans; Esko, Tõnu; Franco, Oscar H; Fulop, Tibor; Gerhard, Glenn S; Glümer, Charlotte; Gottesman, Omri; Grarup, Niels; Gudnason, Vilmundur; Hansen, Torben; Harris, Tamara B; Hayward, Caroline; Hocking, Lynne; Hofman, Albert; Hu, Frank B; Husemoen, Lise Lotte N; Jackson, Rebecca D; Jørgensen, Torben; Jørgensen, Marit E; Kähönen, Mika; Kardia, Sharon L R; König, Wolfgang; Kooperberg, Charles; Kriebel, Jennifer; Launer, Lenore J; Lauritzen, Torsten; Lehtimäki, Terho; Levy, Daniel; Linksted, Pamela; Linneberg, Allan; Liu, Yongmei; Loos, Ruth J F; Lupo, Antonio; Meisinger, Christine; Melander, Olle; Metspalu, Andres; Mitchell, Paul; Nauck, Matthias; Nürnberg, Peter; Orho-Melander, Marju; Parsa, Afshin; Pedersen, Oluf; Peters, Annette; Peters, Ulrike; Polasek, Ozren; Porteous, David; Probst-Hensch, Nicole M; Psaty, Bruce M; Qi, Lu; Raitakari, Olli T; Reiner, Alex P; Rettig, Rainer; Ridker, Paul M; Rivadeneira, Fernando; Rossouw, Jacques E; Schmidt, Frank; Siscovick, David; Soranzo, Nicole; Strauch, Konstantin; Toniolo, Daniela; Turner, Stephen T; Uitterlinden, André G; Ulivi, Sheila; Velayutham, Dinesh; Völker, Uwe; Völzke, Henry; Waldenberger, Melanie; Wang, Jie Jin; Weir, David R; Witte, Daniel; Kuivaniemi, Helena; Fox, Caroline S; Franceschini, Nora; Goessling, Wolfram; Köttgen, Anna; Chu, Audrey Y

    2017-03-01

    Genome-wide association studies have identified >50 common variants associated with kidney function, but these variants do not fully explain the variation in eGFR. We performed a two-stage meta-analysis of associations between genotypes from the Illumina exome array and eGFR on the basis of serum creatinine (eGFRcrea) among participants of European ancestry from the CKDGen Consortium (nStage1: 111,666; nStage2: 48,343). In single-variant analyses, we identified single nucleotide polymorphisms at seven new loci associated with eGFRcrea (PPM1J, EDEM3, ACP1, SPEG, EYA4, CYP1A1, and ATXN2L; PStage1<3.7×10(-7)), of which most were common and annotated as nonsynonymous variants. Gene-based analysis identified associations of functional rare variants in three genes with eGFRcrea, including a novel association with the SOS Ras/Rho guanine nucleotide exchange factor 2 gene, SOS2 (P=5.4×10(-8) by sequence kernel association test). Experimental follow-up in zebrafish embryos revealed changes in glomerular gene expression and renal tubule morphology in the embryonic kidney of acp1- and sos2-knockdowns. These developmental abnormalities associated with altered blood clearance rate and heightened prevalence of edema. This study expands the number of loci associated with kidney function and identifies novel genes with potential roles in kidney formation.

  1. Cloning of Acyl-ACP Thioesterase FatA from Arachis hypogaea L. and Its Expression in Escherichia coli

    PubMed Central

    Chen, Gao; Peng, Zhen-ying; Shan, Lei; Xuan, Ning; Tang, Gui-ying; Zhang, Yan; Li, Lan; He, Qing-fang; Bi, Yu-ping

    2012-01-01

    In this study, a full-length cDNA of the acyl-ACP thioesterase, AhFatA, was cloned from developing seeds of Arachis hypogaea L. by 3′-RACE. Sequence analysis showed that the open reading frame encodes a peptide of 372 amino acids and has 50–70% identity with FatA from other plants. Real-time quantitative PCR analysis revealed that AhFatA was expressed in all tissues of A. hypogaea L., but most strongly in the immature seeds harvested at 60 days after pegging. Heterologous expression of AhFatA in Escherichia coli affected bacterial growth and changed the fatty acid profiles of the membrane lipid, resulting in directed accumulation towards palmitoleic acid and oleic acid. These results indicate that AhFatA is at least partially responsible for determining the high palmitoleic acid and oleic acid composition of E. coli. PMID:23093853

  2. Campylobacter jejuni fatty acid synthase II: Structural and functional analysis of [beta]-hydroxyacyl-ACP dehydratase (FabZ)

    SciTech Connect

    Kirkpatrick, Andrew S.; Yokoyama, Takeshi; Choi, Kyoung-Jae; Yeo, Hye-Jeong

    2009-08-14

    Fatty acid biosynthesis is crucial for all living cells. In contrast to higher organisms, bacteria use a type II fatty acid synthase (FAS II) composed of a series of individual proteins, making FAS II enzymes excellent targets for antibiotics discovery. The {beta}-hydroxyacyl-ACP dehydratase (FabZ) catalyzes an essential step in the FAS II pathway. Here, we report the structure of Campylobacter jejuni FabZ (CjFabZ), showing a hexamer both in crystals and solution, with each protomer adopting the characteristic hot dog fold. Together with biochemical analysis of CjFabZ, we define the first functional FAS II enzyme from this pathogen, and provide a framework for investigation on roles of FAS II in C. jejuni virulence

  3. Crystallization and preliminary X-ray crystallographic analysis of enoyl-ACP reductase III (FabL) from Bacillus subtilis

    SciTech Connect

    Kim, Kook-Han; Park, Joon Kyu; Ha, Byung Hak; Moon, Jin Ho; Kim, Eunice EunKyeong

    2007-03-01

    Enoyl-ACP reductase III (FabL) from B. subtilis has been overexpressed, purified and crystallized. The crystal belongs to space group P622, with unit-cell parameters a = b = 139.56, c = 62.75 Å, α = β = 90, γ = 120°, and data were collected to 2.5 Å resolution using synchrotron radiation. Enoyl-[acyl-carrier protein] reductase (enoyl-ACP reductase; ENR) is a key enzyme in type II fatty-acid synthase that catalyzes the last step in each elongation cycle. It has been considered as an antibiotic target since it is an essential enzyme in bacteria. However, recent studies indicate that some pathogens have more than one ENR. Bacillus subtilis is reported to have two ENRs, namely BsFabI and BsFabL. While BsFabI is similar to other FabIs, BsFabL shows very little sequence similarity and is NADPH-dependent instead of NADH-dependent as in the case of FabI. In order to understand these differences on a structural basis, BsFabL has been cloned, expressed and and crystallized. The crystal belongs to space group P622, with unit-cell parameters a = b = 139.56, c = 62.75 Å, α = β = 90, γ = 120° and one molecule of FabL in the asymmetric unit. Data were collected using synchrotron radiation (beamline 4A at the Pohang Light Source, Korea). The crystal diffracted to 2.5 Å resolution.

  4. X-ray structure of putative acyl-ACP desaturase DesA2 from Mycobacterium tuberculosis H37Rv

    SciTech Connect

    Dyer, David H.; Lyle, Karen S.; Rayment, Ivan; Fox, Brian G.

    2010-07-13

    Genome sequencing showed that two proteins in Mycobacterium tuberculosis H37Rv contain the metal binding motif (D/E)X{sub 2}HX{sub {approx}100}(D/E)X{sub 2}H characteristic of the soluble diiron enzyme superfamily. These putative acyl-ACP desaturase genes desA1 and desA2 were cloned from genomic DNA and expressed in Escherichia coli BL21(DE3). DesA1 was found to be insoluble, but in contrast, DesA2 was a soluble protein amenable to biophysical characterization. Here, we report the 2.0 {angstrom} resolution X-ray structure of DesA2 determined by multiple anomalous dispersion (MAD) phasing from a Se-met derivative and refinement against diffraction data obtained on the native protein. The X-ray structure shows that DesA2 is a homodimeric protein with a four-helix bundle core flanked by five additional helices that overlay with 192 structurally equivalent amino acids in the structure of stearoyl-ACP {Delta}9 desaturase from castor plant with an rms difference 1.42 {angstrom}. In the DesA2 crystals, one metal (likely Mn from the crystallization buffer) was bound in high occupancy at the B-site of the conserved metal binding motif, while the A-site was not occupied by a metal ion. Instead, the amino group of Lys-76 occupied this position. The relationships between DesA2 and known diiron enzymes are discussed.

  5. Expanding Access and Increasing Success in Postsecondary Education for Arizonans. The Arizona Commission for Postsecondary Education (ACPE) 2009-2010 Annual Report

    ERIC Educational Resources Information Center

    Arizona Commission for Postsecondary Education, 2010

    2010-01-01

    The work of the Arizona Commission for Postsecondary Education (ACPE) is guided by a strategic plan. The purpose of the plan is to provide focus for the activity of this small agency and its five staff members in order to increase productivity and impact in the areas of its statutory authority. The mission and goals were accepted by Commissioners…

  6. Expanding Access and Increasing Success in Postsecondary Education for Arizonans. The Arizona Commission for Postsecondary Education (ACPE) 2006-2007 Annual Report

    ERIC Educational Resources Information Center

    Arizona Commission for Postsecondary Education, 2007

    2007-01-01

    The work of the Arizona Commission for Postsecondary Education (ACPE) is guided by a 5 year strategic plan. The purpose of the plan is to provide focus for the activity of this small agency and its eight staff members in order to increase productivity and impact in the areas of its statutory authority. The mission and goals were accepted by…

  7. Expanding Access and Increasing Success in Postsecondary Education for Arizonans. The Arizona Commission for Postsecondary Education (ACPE) 2007-2008 Annual Report

    ERIC Educational Resources Information Center

    Arizona Commission for Postsecondary Education, 2008

    2008-01-01

    The work of the Arizona Commission for Postsecondary Education (ACPE) is guided by a 5-year strategic plan. The purpose of the plan is to provide focus for the activity of this small agency and its nine staff members in order to increase productivity and impact in the areas of its statutory authority. The mission and goals were accepted by …

  8. Expanding Access and Increasing Success in Postsecondary Education for Arizonans. The Arizona Commission for Postsecondary Education (ACPE) 2008-2009 Annual Report

    ERIC Educational Resources Information Center

    Arizona Commission for Postsecondary Education, 2009

    2009-01-01

    The work of the Arizona Commission for Postsecondary Education (ACPE) is guided by a 5-year strategic plan. The purpose of the plan is to provide focus for the activity of this small agency and its eight staff members in order to increase productivity and impact in the areas of its statutory authority. The mission and goals were accepted by…

  9. The PIP training programme: building of ACP experts capacities in crop protection and food safety to support local companies to comply with EU regulations on pesticides residues.

    PubMed

    Schiffers, B C; Schubert, A; Schiffers, C; Fontaine, S; Gumusboga, N; Werner, B; Webb, M; Lugros, H; Stinglhamber, G

    2006-01-01

    Regulatory requirements, and in particular phytosanitary quality standards change rapidly. As ACP producers/exporters race to become more competitive, to keep their market share and to satisfay their customers' commercial demands (e.g. EUREP-GAP certification), the need for competent staff who are aware of the company's quality objectives and trained to follow instructions is crucial. Mastering sanitary quality is only possible if matched with a programme to build the skills of companies' human resources. The Pesticide Initiative Programme (PIP), mindful of the importance of making operators autonomous and of training them to monitor EU food safety regulations and technology on their own, has successfully developed a training programme while building a quality network of local/ACP service providers. By building the capacities of ACP experts and then securing their services as trainers, PIP also guarantees companies' access to expertise and the sustainability of their efforts to comply with new EU regulations. The training strategy developed by PIP rests on two pilars: instructor training and collective training. Instructor training consists in reinforcing the technical knowledge of local experts (agronomists, hygienists, etc.) by providing them with active teaching methods. Once the ACP experts have gained enough technical knowledge of the key areas of crop protection--mainly pesticides management--and food safety, and have demonstrated their capacity to train the technical staff of local companies, the PIP has carried out a collective training programme in 2004, 2005 and 2006. To date, more than 130 consultants covering about 15 ACP countries have received instructor training, and more than 700 people have participated in collective and in-company training sessions.

  10. Towards real-time stereovision systems for planetary missions

    NASA Astrophysics Data System (ADS)

    Parkes, Stephen Maxwell

    1993-01-01

    Stereovision algorithms applicable to planetary mobile vehicles are considered. Stereovision systems have an important role to play in planetary exploration from digital elevation modeling of planetary surfaces to navigation of semiautonomous vehicles and control of robotic manipulators. Real time stereovision systems require very high processing power which can only be met by a heterogeneous multiprocessor processing architecture. The current and future processing technologies are examined together with the constraints on space-based electronic systems. The integrated multiprocessor system being developed for digital signal and image processing applications is described.

  11. Modification of triclosan scaffold in search of improved inhibitors for enoyl-acyl carrier protein (ACP) reductase in Toxoplasma gondii.

    PubMed

    Stec, Jozef; Fomovska, Alina; Afanador, Gustavo A; Muench, Stephen P; Zhou, Ying; Lai, Bo-Shiun; El Bissati, Kamal; Hickman, Mark R; Lee, Patty J; Leed, Susan E; Auschwitz, Jennifer M; Sommervile, Caroline; Woods, Stuart; Roberts, Craig W; Rice, David; Prigge, Sean T; McLeod, Rima; Kozikowski, Alan P

    2013-07-01

    Through our focused effort to discover new and effective agents against toxoplasmosis, a structure-based drug design approach was used to develop a series of potent inhibitors of the enoyl-acyl carrier protein (ACP) reductase (ENR) enzyme in Toxoplasma gondii (TgENR). Modifications to positions 5 and 4' of the well-known ENR inhibitor triclosan afforded a series of 29 new analogues. Among the resulting compounds, many showed high potency and improved physicochemical properties in comparison with the lead. The most potent compounds 16 a and 16 c have IC50 values of 250 nM against Toxoplasma gondii tachyzoites without apparent toxicity to the host cells. Their IC50 values against recombinant TgENR were found to be 43 and 26 nM, respectively. Additionally, 11 other analogues in this series had IC50 values ranging from 17 to 130 nM in the enzyme-based assay. With respect to their excellent in vitro activity as well as improved drug-like properties, the lead compounds 16 a and 16 c are deemed to be excellent starting points for the development of new medicines to effectively treat Toxoplasma gondii infections.

  12. Expression of the heterologous Dunaliella tertiolecta fatty acyl-ACP thioesterase leads to increased lipid production in Chlamydomonas reinhardtii.

    PubMed

    Tan, Kenneth Wei Min; Lee, Yuan Kun

    2017-04-10

    Biofuel production from genetically-engineered microalgae is currently among the most widely studied strategies in generating renewable energy. However, microalgae currently suffer from low oil yields which limit the commercial feasibility of industrial-scale production. A major bottleneck in cost-efficient biofuel production from microalgae is the dilemma between biomass productivity and lipid accumulation. When grown under stressful culture conditions such as nitrogen depletion, microalgae accumulate large amounts of neutral lipids, but it comes at the expense of growth which negatively impacts overall lipid productivity. Overexpression of acyl-ACP thioesterases (TE) had been successful in increasing the production of fatty acids (FA) in prokaryotes such as E. coli and cyanobacteria, but has not been effectively tested in microalgae. In this study, we introduced a TE from D. tertiolecta (DtTE) into C. reinhardtii to investigate its effects on FA production without compromising growth. The results indicate that C. reinhardtii transformants were able to produce 63 and 94% more neutral lipids than the wild-type, which translates to an approximately 56% improvement in total lipids, without compromising growth. These findings demonstrate the cross-species functionality of TE, and provide a platform for further studies into using TE as a strategy to increase biofuel production from microalgae.

  13. Modification of Triclosan Scaffold in Search of Improved Inhibitors for Enoyl-Acyl Carrier Protein (ACP) Reductase in Toxoplasma gondii

    PubMed Central

    Stec, Jozef; Fomovska, Alina; Afanador, Gustavo A.; Muench, Stephen P.; Zhou, Ying; Lai, Bo-Shiun; Bissati, Kamal El; Hickman, Mark R.; Lee, Patty J.; Leed, Susan E.; Auschwitz, Jennifer M.; Sommervile, Caroline; Woods, Stuart; Roberts, Craig W.; Rice, David; Prigge, Sean T.; McLeod, Rima; Kozikowski, Alan P.

    2013-01-01

    Through our focused effort to discover new and effective agents against toxoplasmosis, a structure-based drug design approach was utilized to develop a series of potent inhibitors of the enoyl-acyl carrier protein (ACP) reductase (ENR) enzyme in Toxoplasma gondii (TgENR). Modifications to positions 5 and 4′ of the well-known ENR inhibitor triclosan afforded a series of 29 new analogs. Among the resulting compounds, many showed high potency and improved physicochemical properties in comparison with the lead. The most potent compounds 16a and 16c have IC50 values of 250 nM against Toxoplasma gondii tachyzoites without apparent toxicity to the host cells. Their IC50 values against the recombinant TgENR were 43 and 26 nM, respectively. Additionally, 11 other analogs in this series had IC50 values ranging from 17 to 130 nM in the enzyme-based assay. With respect to their excellent in vitro activity as well as improved drug-like properties, the lead compounds 16a and 16c are deemed to be an excellent starting point for the development of new medicines to effectively treat Toxoplasma gondii infections. PMID:23776166

  14. 3-Oxoacyl-ACP Reductase from Schistosoma japonicum: Integrated In Silico-In Vitro Strategy for Discovering Antischistosomal Lead Compounds

    PubMed Central

    Liu, Jian; Dyer, Dave; Wang, Jipeng; Wang, Shuqi; Du, Xiaofeng; Xu, Bin; Zhang, Haobing; Wang, Xiaoning; Hu, Wei

    2013-01-01

    Background Schistosomiasis is a disease caused by parasitic worms and more than 200 million people are infected worldwide. The emergence of resistance to the most commonly used drug, praziquantel (PZQ), makes the development of novel drugs an urgent task. 3-oxoacyl-ACP reductase (OAR), a key enzyme involved in the fatty acid synthesis pathway, has been identified as a potential drug target against many pathogenic organisms. However, no research on Schistosoma japonicum OAR (SjOAR) has been reported. The characterization of the SjOAR protein will provide new strategies for screening antischistosomal drugs that target SjOAR. Methodology/Principal Findings After cloning the SjOAR gene, recombinant SjOAR protein was purified and assayed for enzymatic activity. The tertiary structure of SjOAR was obtained by homology modeling and 27 inhibitor candidates were identified from 14,400 compounds through molecular docking based on the structure. All of these compounds were confirmed to be able to bind to the SjOAR protein by BIAcore analysis. Two compounds exhibited strong antischistosomal activity and inhibitory effects on the enzymatic activity of SjOAR. In contrast, these two compounds showed relatively low toxicity towards host cells. Conclusions/Significance The work presented here shows the feasibility of isolation of new antischistosomal compounds using a combination of virtual screening and experimental validation. Based on this strategy, we successfully identified 2 compounds that target SjOAR with strong antischistosomal activity but relatively low cytotoxicity to host cells. PMID:23762275

  15. Type III polyketide synthase beta-ketoacyl-ACP starter unit and ethylmalonyl-CoA extender unit selectivity discovered by Streptomyces coelicolor genome mining.

    PubMed

    Song, Lijiang; Barona-Gomez, Francisco; Corre, Christophe; Xiang, Longkuan; Udwary, Daniel W; Austin, Michael B; Noel, Joseph P; Moore, Bradley S; Challis, Gregory L

    2006-11-22

    Polyketide synthases (PKSs) are involved in the biosynthesis of many important natural products. In bacteria, type III PKSs typically catalyze iterative decarboxylation and condensation reactions of malonyl-CoA building blocks in the biosynthesis of polyhydroxyaromatic products. Here it is shown that Gcs, a type III PKS encoded by the sco7221 ORF of the bacterium Streptomyces coelicolor, is required for biosynthesis of the germicidin family of 3,6-dialkyl-4-hydroxypyran-2-one natural products. Evidence consistent with Gcs-catalyzed elongation of specific beta-ketoacyl-ACP products of the fatty acid synthase FabH with ethyl- or methylmalonyl-CoA in the biosynthesis of germicidins is presented. Selectivity for beta-ketoacyl-ACP starter units and ethylmalonyl-CoA as an extender unit is unprecedented for type III PKSs, suggesting these enzymes may be capable of utilizing a far wider range of starter and extender units for natural product assembly than believed until now.

  16. Discovery of a novel insect neuropeptide signaling system closely related to the insect adipokinetic hormone and corazonin hormonal systems.

    PubMed

    Hansen, Karina K; Stafflinger, Elisabeth; Schneider, Martina; Hauser, Frank; Cazzamali, Giuseppe; Williamson, Michael; Kollmann, Martin; Schachtner, Joachim; Grimmelikhuijzen, Cornelis J P

    2010-04-02

    Neuropeptides and their G protein-coupled receptors (GPCRs) play a central role in the physiology of insects. One large family of insect neuropeptides are the adipokinetic hormones (AKHs), which mobilize lipids and carbohydrates from the insect fat body. Other peptides are the corazonins that are structurally related to the AKHs but represent a different neuropeptide signaling system. We have previously cloned an orphan GPCR from the malaria mosquito Anopheles gambiae that was structurally intermediate between the A. gambiae AKH and corazonin GPCRs. Using functional expression of the receptor in cells in cell culture, we have now identified the ligand for this orphan receptor as being pQVTFSRDWNAamide, a neuropeptide that is structurally intermediate between AKH and corazonin and that we therefore named ACP (AKH/corazonin-related peptide). ACP does not activate the A. gambiae AKH and corazonin receptors and, vice versa, AKH and corazonin do not activate the ACP receptor, showing that the ACP/receptor couple is an independent and so far unknown peptidergic signaling system. Because ACP is structurally intermediate between AKH and corazonin and the ACP receptor between the AKH and corazonin receptors, this is a prominent example of receptor/ligand co-evolution, probably originating from receptor and ligand gene duplications followed by mutations and evolutionary selection, thereby yielding three independent hormonal systems. The ACP signaling system occurs in the mosquitoes A. gambiae, Aedes aegypti, and Culex pipiens (Diptera), the silkworm Bombyx mori (Lepidoptera), the red flour beetle Tribolium castaneum (Coleoptera), the parasitic wasp Nasonia vitripennis (Hymenoptera), and the bug Rhodnius prolixus (Hemiptera). However, the ACP system is not present in 12 Drosophila species (Diptera), the honeybee Apis mellifera (Hymenoptera), the pea aphid Acyrthosiphon pisum (Hemiptera), the body louse Pediculus humanus (Phthiraptera), and the crustacean Daphnia pulex

  17. Process for predicting structural performance of mechanical systems

    DOEpatents

    Gardner, D.R.; Hendrickson, B.A.; Plimpton, S.J.; Attaway, S.W.; Heinstein, M.W.; Vaughan, C.T.

    1998-05-19

    A process for predicting the structural performance of a mechanical system represents the mechanical system by a plurality of surface elements. The surface elements are grouped according to their location in the volume occupied by the mechanical system so that contacts between surface elements can be efficiently located. The process is well suited for efficient practice on multiprocessor computers. 12 figs.

  18. Process for predicting structural performance of mechanical systems

    DOEpatents

    Gardner, David R.; Hendrickson, Bruce A.; Plimpton, Steven J.; Attaway, Stephen W.; Heinstein, Martin W.; Vaughan, Courtenay T.

    1998-01-01

    A process for predicting the structural performance of a mechanical system represents the mechanical system by a plurality of surface elements. The surface elements are grouped according to their location in the volume occupied by the mechanical system so that contacts between surface elements can be efficiently located. The process is well suited for efficient practice on multiprocessor computers.

  19. Radiolabelling and positron emission tomography of PT70, a time-dependent inhibitor of InhA, the Mycobacterium tuberculosis enoyl-ACP reductase.

    PubMed

    Wang, Hui; Liu, Li; Lu, Yang; Pan, Pan; Hooker, Jacob M; Fowler, Joanna S; Tonge, Peter J

    2015-11-01

    PT70 is a diaryl ether inhibitor of InhA, the enoyl-ACP reductase in the Mycobacterium tuberculosis fatty acid biosynthesis pathway. It has a residence time of 24 min on the target, and also shows antibacterial activity in a mouse model of tuberculosis infection. Due to the interest in studying target tissue pharmacokinetics of PT70, we developed a method to radiolabel PT70 with carbon-11 and have studied its pharmacokinetics in mice and baboons using positron emission tomography.

  20. Cryopreservation of collared peccaries (Tayassu tajacu) semen using a powdered coconut water (ACP-116c) based extender plus various concentrations of egg yolk and glycerol.

    PubMed

    Silva, M A; Peixoto, G C X; Lima, G L; Bezerra, J A B; Campos, L B; Paiva, A L C; Paula, V V; Silva, A R

    2012-08-01

    The objective was to determine the effectiveness of a powdered coconut water-based extender (ACP-116c), plus various concentrations of egg-yolk and glycerol, as an alternative for cryopreservation of collared peccary semen. Twelve ejaculates were obtained from captive adult males by electroejaculation, and evaluated for sperm motility, kinetic rating, viability, morphology, and functional membrane integrity. The ejaculates were apportioned into aliquots that were diluted in Tris plus 10% egg yolk and 3% glycerol, or in ACP-116c plus 10 or 20% egg yolk and 1.5 or 3% glycerol. Samples were frozen in liquid nitrogen and, after 1 mo, thawed at 37 °C for 1 min. After thawing, samples were evaluated as reported for fresh semen, and also for sperm membrane integrity (fluorescent probes) and kinematic parameters (computerized analysis). Results were presented as means ± SEM. Freezing and thawing decreased sperm characteristics relative to fresh semen. Overall, ACP-116c plus 20% egg yolk and 3% glycerol provided better (P < 0.05) sperm motility and kinetic rating (48 ± 6.1% and 2.8 ± 0.2, respectively) after thawing than Tris extender (30.4 ± 5.7% and 2.4 ± 0.2). However, there were no differences (P > 0.05) among treatments with regard to the other sperm characteristics. Based on computerized motion analysis, total (26.5 ± 5.9%) and progressive (8.1 ± 2.2%) motility were best preserved (P < 0.05) with the above-mentioned treatment. In conclusion, a coconut water-based extender, ACP-116c, plus 20% egg yolk and 3% glycerol, was effective for cryopreservation of semen from collared peccaries.

  1. Radiolabelling and positron emission tomography of PT70, a time-dependent inhibitor of InhA, the Mycobacterium tuberculosis enoyl-ACP reductase

    DOE PAGES

    Wang, Hui; Liu, Li; Lu, Yang; ...

    2015-07-14

    PT70 is a diaryl ether inhibitor of InhA, the enoyl-ACP reductase in the Mycobacterium tuberculosis fatty acid biosynthesis pathway. It has a residence time of 24 min on the target, and also shows antibacterial activity in a mouse model of tuberculosis infection. Due to the interest in studying target tissue pharmacokinetics of PT70, we developed a method to radiolabel PT70 with carbon-11 and have studied its pharmacokinetics in mice and baboons using positron emission tomography.

  2. Prediction of parallel NIKE3D performance on the KSR1 system

    SciTech Connect

    Su, P.S.; Zacharia, T.; Fulton, R.E.

    1995-05-01

    Finite element method is one of the bases for numerical solutions to engineering problems. Complex engineering problems using finite element analysis typically imply excessively large computational time. Parallel supercomputers have the potential for significantly increasing calculation speeds in order to meet these computational requirements. This paper predicts parallel NIKE3D performance on the Kendall Square Research (KSR1) system. The first part of the prediction is based on the implementation of parallel Cholesky (U{sup T}DU) matrix decomposition algorithm through actual computations on the KSRI multiprocessor system, with 64 processors, at Oak Ridge National Laboratory. The other predictions are based on actual computations for parallel element matrix generation, parallel global stiffness matrix assembly, and parallel forward/backward substitution on the BBN TC2000 multiprocessor system at Lawrence Livermore National Laboratory. The preliminary results indicate that parallel NIKE3D performance can be attractive under local/shared-memory multiprocessor system environments.

  3. A parallel row-based algorithm with error control for standard-cell replacement on a hypercube multiprocessor

    NASA Technical Reports Server (NTRS)

    Sargent, Jeff Scott

    1988-01-01

    A new row-based parallel algorithm for standard-cell placement targeted for execution on a hypercube multiprocessor is presented. Key features of this implementation include a dynamic simulated-annealing schedule, row-partitioning of the VLSI chip image, and two novel new approaches to controlling error in parallel cell-placement algorithms; Heuristic Cell-Coloring and Adaptive (Parallel Move) Sequence Control. Heuristic Cell-Coloring identifies sets of noninteracting cells that can be moved repeatedly, and in parallel, with no buildup of error in the placement cost. Adaptive Sequence Control allows multiple parallel cell moves to take place between global cell-position updates. This feedback mechanism is based on an error bound derived analytically from the traditional annealing move-acceptance profile. Placement results are presented for real industry circuits and the performance is summarized of an implementation on the Intel iPSC/2 Hypercube. The runtime of this algorithm is 5 to 16 times faster than a previous program developed for the Hypercube, while producing equivalent quality placement. An integrated place and route program for the Intel iPSC/2 Hypercube is currently being developed.

  4. Sequence-level comparative analysis of the Brassica napus genome around two stearoyl-ACP desaturase loci.

    PubMed

    Cho, Kwangsoo; O'Neill, Carmel M; Kwon, Soo-Jin; Yang, Tae-Jin; Smooker, Andrew M; Fraser, Fiona; Bancroft, Ian

    2010-02-01

    We conducted a sequence-level comparative analyses, at the scale of complete bacterial artificial chromosome (BAC) clones, between the genome of the most economically important Brassica species, Brassica napus (oilseed rape), and those of Brassica rapa, the genome of which is currently being sequenced, and Arabidopsis thaliana. We constructed a new B. napus BAC library and identified and sequenced clones that contain homoeologous regions of the genome including stearoyl-ACP desaturase-encoding genes. We sequenced the orthologous region of the genome of B. rapa and conducted comparative analyses between the Brassica sequences and those of the orthologous region of the genome of A. thaliana. The proportion of genes conserved (approximately 56%) is lower than has been reported previously between A. thaliana and Brassica (approximately 66%). The gene models for sets of conserved genes were used to determine the extent of nucleotide conservation of coding regions. This was found to be 84.2 +/- 3.9% and 85.8 +/- 3.7% between the B. napus A and C genomes, respectively, and that of A. thaliana, which is consistent with previous results for other Brassica species, and 97.5 +/- 3.1% between the B. napus A genome and B. rapa, and 93.1 +/- 4.9% between the B. napus C genome and B. rapa. The divergence of the B. napus genes from the A genome and the B. rapa genes was greater than anticipated and indicates that the A genome ancestor of the B. napus cultivar studied was relatively distantly related to the cultivar of B. rapa selected for genome sequencing.

  5. Rationalizing the Binding Kinetics for the Inhibition of the Burkholderia pseudomallei FabI1 Enoyl-ACP Reductase.

    PubMed

    Neckles, Carla; Eltschkner, Sandra; Cummings, Jason E; Hirschbeck, Maria; Daryaee, Fereidoon; Bommineni, Gopal R; Zhang, Zhuo; Spagnuolo, Lauren; Yu, Weixuan; Davoodi, Shabnam; Slayden, Richard A; Kisker, Caroline; Tonge, Peter J

    2017-04-04

    There is growing awareness of the link between drug-target residence time and in vivo drug activity, and there are increasing efforts to determine the molecular factors that control the lifetime of a drug-target complex. Rational alterations in the drug-target residence time require knowledge of both the ground and transition states on the inhibition reaction coordinate, and we have determined the structure-kinetic relationship for 22 ethyl- or hexyl-substituted diphenyl ethers that are slow-binding inhibitors of bpFabI1, the enoyl-ACP reductase FabI1 from Burkholderia pseudomallei. Analysis of enzyme inhibition using a two-dimensional kinetic map demonstrates that the ethyl and hexyl diphenyl ethers fall into two distinct clusters. Modifications to the ethyl diphenyl ether B ring result in changes to both on and off rates, where residence times of up to ∼700 min (∼11 h) are achieved by either ground state stabilization (PT444) or transition state destabilization (slower on rate) (PT404). By contrast, modifications to the hexyl diphenyl ether B ring result in residence times of 300 min (∼5 h) through changes in only ground state stabilization (PT119). Structural analysis of nine enzyme:inhibitor complexes reveals that the variation in structure-kinetic relationships can be rationalized by structural rearrangements of bpFabI1 and subtle changes to the orientation of the inhibitor in the binding pocket. Finally, we demonstrate that three compounds with residence times on bpFabI1 from 118 min (∼2 h) to 670 min (∼11 h) have in vivo efficacy in an acute B. pseudomallei murine infection model using the virulent B. pseudomallei strain Bp400.

  6. Mutations in a delta9-Stearoyl-ACP-Desaturase Gene Are Associated with Enhanced Stearic Acid Levels in Soybean Seeds

    SciTech Connect

    Zhang, P.; Shanklin, J.; Burton, J. W.; Upchurch, R. G.; Whittle, E.; Dewey, R. E.

    2008-11-01

    Stearic acid (18:0) is typically a minor component of soybean [Glycine max (L.) Merr.] oil, accounting for only 2 to 4% of the total fatty acid content. Increasing stearic acid levels of soybean oil would lead to enhanced oxidative stability, potentially reducing the need for hydrogenation, a process leading to the formation of undesirable trans fatty acids. Although mutagenesis strategies have been successful in developing soybean germplasm with elevated 18:0 levels in the seed oil, the specific gene mutations responsible for this phenotype were not known. We report a newly identified soybean gene, designated SACPD-C, that encodes a unique isoform of {Delta}{sup 9}-stearoyl-ACP-desaturase, the enzyme responsible for converting stearic acid to oleic acid (18:1). High levels of SACPD-C transcript were only detected in developing seed tissue, suggesting that the encoded desaturase functions to enhance oleic acid biosynthetic capacity as the immature seed is actively engaged in triacylglycerol production and storage. The participation of SACPD-C in storage triacylglycerol synthesis is further supported by the observation of mutations in this gene in two independent sources of elevated 18:0 soybean germplasm, A6 (30% 18:0) and FAM94-41 (9% 18:0). A molecular marker diagnostic for the FAM94-41 SACPD-C gene mutation strictly associates with the elevated 18:0 phenotype in a segregating population, and could thus serve as a useful tool in the development of cultivars with oils possessing enhanced oxidative stability.

  7. Effect of ACP-CPP Chewing Gum and Natural Chewable Products on Plaque pH, Calcium and Phosphate Concentration

    PubMed Central

    Sultan, Saima; Chaudhary, Seema; Manuja, Naveen; Kaur, Harsimran; Amit, Sinha Ashish; Lingesha, Ravishankar Telgi

    2016-01-01

    Introduction Numerous epidemiological studies have documented dental caries as the major public health problems throughout the world. It is gradually increasing in the underdeveloped and developing countries especially in children due to increasing popularity of refined sugars. Aim The aim of the study was to evaluate the effect of natural chewable products (Tulsi, sesame seeds, fennel seeds, coconut) and ACP-CPP chewing gum on plaque pH, calcium and phosphate concentration. Materials and Methods A randomized controlled trial, with a cross-over study design, was conducted. Ten subjects aged 15-17 years who agreed to refrain from oral hygiene practice for 48 hours prior to the sample collection were selected for the study. The baseline plaque pH, calcium and phosphate was measured and repeated after 5 and 30 minutes. It was ensured that each study participant was subjected to all the products making an effective sample of ten subjects per product. The data was statistically analysed. Results The mean pH in all the study groups increased after 5 minutes and 30 minutes compared to baseline, except for coconut group at 30 minutes and fennel group at 5 minutes. Highest increase in plaque calcium concentration was found in fennel group followed by recaldent and sesame, respectively. Whereas, the highest increase in plaque phosphate was found in recaldent group followed by sesame group and fennel group respectively. Conclusion Plant products can be effective, inexpensive, easily accessible methods of maintaining oral health. Further studies are recommended to confirm long term effects. PMID:27190943

  8. High performance parallel computers for science: New developments at the Fermilab advanced computer program

    SciTech Connect

    Nash, T.; Areti, H.; Atac, R.; Biel, J.; Cook, A.; Deppe, J.; Edel, M.; Fischler, M.; Gaines, I.; Hance, R.

    1988-08-01

    Fermilab's Advanced Computer Program (ACP) has been developing highly cost effective, yet practical, parallel computers for high energy physics since 1984. The ACP's latest developments are proceeding in two directions. A Second Generation ACP Multiprocessor System for experiments will include $3500 RISC processors each with performance over 15 VAX MIPS. To support such high performance, the new system allows parallel I/O, parallel interprocess communication, and parallel host processes. The ACP Multi-Array Processor, has been developed for theoretical physics. Each $4000 node is a FORTRAN or C programmable pipelined 20 MFlops (peak), 10 MByte single board computer. These are plugged into a 16 port crossbar switch crate which handles both inter and intra crate communication. The crates are connected in a hypercube. Site oriented applications like lattice gauge theory are supported by system software called CANOPY, which makes the hardware virtually transparent to users. A 256 node, 5 GFlop, system is under construction. 10 refs., 7 figs.

  9. Application of parallel processing techniques to the simulation of power system electromagnetic transients

    SciTech Connect

    Falcao, D.M.; Kaszkurewicz, E. . COPPE-EE Almeida, H.L.S. . Centro de Pesquisas de Energia Electrica)

    1993-02-01

    This paper proposes the use of parallel techniques for the computation of power system electromagnetic transients in a multiprocessor environment. System partitioning and parallel solution methods are described. Questions regarding computational load balancing and communication overheads are discussed and techniques are presented to improve the proposed method with respect to those matters. In order to demonstrate the feasibility and to assess the performance of the proposed techniques, a parallel electromagnetic transients program for a multiprocessor environment has been developed. Tests using real power networks of different sizes, executed in an 8-processor hypercube machine, have shown promising performance indices.

  10. A Hierarchical Network of Provably Optimal Learning Control Systems: Extensions of the Associative Control Process (ACP) Network

    DTIC Science & Technology

    1993-01-01

    Assuming N = 0 at all times, there is only one reinforcement center that is active, the positive reinforcement ccnter (PC). The negative...centers (circles on the left) and a layer consisting of a pair of reinforcement centers (circles on the right). The positive reinforcement center (PC...learns to predict the occurrence of positive reinforcement (P). If the signal N is zero at all times, then the reinforcement center NC has no effect on

  11. Memory management and compiler support for rapid recovery from failures in computer systems

    NASA Technical Reports Server (NTRS)

    Fuchs, W. K.

    1991-01-01

    This paper describes recent developments in the use of memory management and compiler technology to support rapid recovery from failures in computer systems. The techniques described include cache coherence protocols for user transparent checkpointing in multiprocessor systems, compiler-based checkpoint placement, compiler-based code modification for multiple instruction retry, and forward recovery in distributed systems utilizing optimistic execution.

  12. Research in the Aloha system

    NASA Technical Reports Server (NTRS)

    Abramson, N.

    1974-01-01

    The Aloha system was studied and developed and extended to advanced forms of computer communications networks. Theoretical and simulation studies of Aloha type radio channels for use in packet switched communications networks were performed. Improved versions of the Aloha communications techniques and their extensions were tested experimentally. A packet radio repeater suitable for use with the Aloha system operational network was developed. General studies of the organization of multiprocessor systems centered on the development of the BCC 500 computer were concluded.

  13. Genetic enhancement of palmitic acid accumulation in cotton seed oil through RNAi down-regulation of ghKAS2 encoding β-ketoacyl-ACP synthase II (KASII).

    PubMed

    Liu, Qing; Wu, Man; Zhang, Baolong; Shrestha, Pushkar; Petrie, James; Green, Allan G; Singh, Surinder P

    2017-01-01

    Palmitic acid (C16:0) already makes up approximately 25% of the total fatty acids in the conventional cotton seed oil. However, further enhancements in palmitic acid content at the expense of the predominant unsaturated fatty acids would provide increased oxidative stability of cotton seed oil and also impart the high melting point required for making margarine, shortening and confectionary products free of trans fatty acids. Seed-specific RNAi-mediated down-regulation of β-ketoacyl-ACP synthase II (KASII) catalysing the elongation of palmitoyl-ACP to stearoyl-ACP has succeeded in dramatically increasing the C16 fatty acid content of cotton seed oil to well beyond its natural limits, reaching up to 65% of total fatty acids. The elevated C16 levels were comprised of predominantly palmitic acid (C16:0, 51%) and to a lesser extent palmitoleic acid (C16:1, 11%) and hexadecadienoic acid (C16:2, 3%), and were stably inherited. Despite of the dramatic alteration of fatty acid composition and a slight yet significant reduction in oil content in these high-palmitic (HP) lines, seed germination remained unaffected. Regiochemical analysis of triacylglycerols (TAG) showed that the increased levels of palmitic acid mainly occurred at the outer positions, while C16:1 and C16:2 were predominantly found in the sn-2 position in both TAG and phosphatidylcholine. Crossing the HP line with previously created high-oleic (HO) and high-stearic (HS) genotypes demonstrated that HP and HO traits could be achieved simultaneously; however, elevation of stearic acid was hindered in the presence of high level of palmitic acid.

  14. Cloning, characterization, and expression analysis of acyl-acyl carrier protein (ACP)-thioesterase B from seeds of Chinese Spicehush (Lindera communis).

    PubMed

    Dong, Shubin; Huang, Jiacong; Li, Yannan; Zhang, Jing; Lin, Shanzhi; Zhang, Zhixiang

    2014-05-25

    Acyl-acyl carrier protein (ACP) thioesterases (TE EC 3.1.2.14) are fatty acid biosynthesis key enzymes that determine fatty acid carbon chain length in most plant tissues. A full-length cDNA corresponding to one of the fatty acyl-ACP thioesterase (Fat) genes, designated LcFatB, was isolated from developing Lindera communis seeds using PCR and RACE with degenerate primers based on conserved sequences of multiple TE gene sequences obtained from GenBank. The 1788 bp cDNA had an open reading frame (ORF) of 1260 bp encoding a protein of 419 amino acids. The deduced amino acid sequence showed 61-73% identity to proteins in the FatB class of plant thioesterases. Real-time quantitative PCR analysis revealed that LcFatB was expressed in all tissues of L. communis, with the highest expression in the developing seeds 75days after flowering. Recombinant pET-MLcFatB was constructed using the pET-30 a vector and transformed into Escherichia coli BL21(DE3)△FadE, a strain that deleted the acyl-CoA dehydrogenase (FadE). SDS-PAGE analysis of proteins isolated from pET-MLcFatB E. coli cells after induction with IPTG revealed a protein band at ~40.5kDa, corresponding to the predicted size of LcFatB mature protein. The decanoic acid and lauric acid contents of the pET-MLcFatB transformant were increased significantly. These findings suggest that an LcFatB gene from a non-traditional oil-seed tree could be used to function as a saturated acyl-ACP thioesterase and could potentially be used to modify the fatty acid composition of seed oil from L. communis or other species through transgenic approaches.

  15. An intact cuticle in distal tissues is essential for the induction of systemic acquired resistance in plants.

    PubMed

    Xia, Ye; Gao, Qing-Ming; Yu, Keshun; Lapchyk, Ludmila; Navarre, DuRoy; Hildebrand, David; Kachroo, Aardra; Kachroo, Pradeep

    2009-02-19

    Systemic acquired resistance (SAR), initiated by a plant upon recognition of microbial effectors, involves generation of a mobile signal at the primary infection site, which translocates to and activates defense responses in distal tissues via unknown mechanism(s). We find that an acyl carrier protein, ACP4, is required to perceive the mobile SAR signal in distal tissues of Arabidopsis. Although acp4 plants generated the mobile signal, they failed to induce the systemic immunity response. Defective SAR in acp4 plants was not due to impairment in salicylic acid (SA)-, methyl SA-, or jasmonic acid-mediated plant hormone signaling pathways but was associated with the impaired cuticle of acp4 leaves. Other cuticle-impairing genetic mutations or physical removal of the cuticle also compromised SAR. This cuticular requirement was relevant only during mobile signal generation and its translocation to distal tissues. Collectively, these data suggest an active role for the plant cuticle in SAR-related molecular signaling.

  16. Design of a modular digital computer system, DRL 4. [for meeting future requirements of spaceborne computers

    NASA Technical Reports Server (NTRS)

    1972-01-01

    The design is reported of an advanced modular computer system designated the Automatically Reconfigurable Modular Multiprocessor System, which anticipates requirements for higher computing capacity and reliability for future spaceborne computers. Subjects discussed include: an overview of the architecture, mission analysis, synchronous and nonsynchronous scheduling control, reliability, and data transmission.

  17. Deposition of stearate-oleate rich seed fat in Mangifera indica is mediated by a FatA type acyl-ACP thioesterase.

    PubMed

    Bhattacharjee, Ashish; Ghosh, Santosh K; Neogi, Krishnakali; Aich, Aniruddha; Willard, Belinda; Kinter, Michael; Sen, Soumitra K; Ghosh, Dolly; Ghosh, Sudhamoy

    2011-02-01

    Although the mechanism of accumulation of C8-C16 saturated fatty acids in seed oils has been well-studied, the control of stearic (C18:0) acid deposition in high stearate seed fat is still unclear. We investigated the mechanism that regulates high level of stearate and oleate (C18:1) accumulation in mango (Mangifera indica) seeds during its development, and examined the seed plastid extracts for induction of any specialized fatty acyl-ACP thioesterase (Fat) that may control this high level of deposition. Though the specificity of the Fat enzymes does not account directly for the fatty acid composition of mango seeds, our result suggested that an induced synthesis of a FatA type of thioesterase could be responsible for the high content of oleate and stearate in its seed fat. The major thioesterase from developing seed kernel was purified to near homogeneity, and characterized as a heat-labile, dimeric, neutral protein with relative substrate specificity of 100:35:1.8 towards oleoyl-, stearoyl- and palmitoyl-ACP, respectively. This enzyme was confirmed as Mi FatA by mass spectrometric analysis. Additionally, a heat-stable FatB type enzyme (Mi FatB) was also partially purified, with relative substrate specificity for the same substrates as 9:8.5:100, respectively. Mi FatA is an enzyme of great biotechnological interest because of its involvement in the regulation of stearate rich seed fat in mango.

  18. Biochemical characteristics of AtFAR2, a fatty acid reductase from Arabidopsis thaliana that reduces fatty acyl-CoA and -ACP substrates into fatty alcohols.

    PubMed

    Doan, Thuy T P; Carlsson, Anders S; Stymne, Sten; Hofvander, Per

    2016-01-01

    Fatty alcohols and derivatives are important for proper deposition of a functional pollen wall. Mutations in specific genes encoding fatty acid reductases (FAR) responsible for fatty alcohol production cause abnormal development of pollen. A disrupted AtFAR2 (MS2) gene in Arabidopsis thaliana results in pollen developing an abnormal exine layer and a reduced fertility phenotype. AtFAR2 has been shown to be targeted to chloroplasts and in a purified form to be specific for acyl-ACP substrates. Here, we present data on the in vitro and in planta characterizations of AtFAR2 from A. thaliana and show that this enzyme has the ability to use both, C16:0-ACP and C16:0-CoA, as substrates to produce C16:0-alcohol. Our results further show that AtFAR2 is highly similar in properties and substrate specificity to AtFAR6 for which in vitro data has been published, and which is also a chloroplast localized enzyme. This suggests that although AtFAR2 is the major enzyme responsible for exine layer functionality, AtFAR6 might provide functional redundancy to AtFAR2.

  19. Performance Modeling and Measurement of Parallelized Code for Distributed Shared Memory Multiprocessors

    NASA Technical Reports Server (NTRS)

    Waheed, Abdul; Yan, Jerry

    1998-01-01

    This paper presents a model to evaluate the performance and overhead of parallelizing sequential code using compiler directives for multiprocessing on distributed shared memory (DSM) systems. With increasing popularity of shared address space architectures, it is essential to understand their performance impact on programs that benefit from shared memory multiprocessing. We present a simple model to characterize the performance of programs that are parallelized using compiler directives for shared memory multiprocessing. We parallelized the sequential implementation of NAS benchmarks using native Fortran77 compiler directives for an Origin2000, which is a DSM system based on a cache-coherent Non Uniform Memory Access (ccNUMA) architecture. We report measurement based performance of these parallelized benchmarks from four perspectives: efficacy of parallelization process; scalability; parallelization overhead; and comparison with hand-parallelized and -optimized version of the same benchmarks. Our results indicate that sequential programs can conveniently be parallelized for DSM systems using compiler directives but realizing performance gains as predicted by the performance model depends primarily on minimizing architecture-specific data locality overhead.

  20. RTEMS SMP for LEON3/LEON4 Multi-Processor Devicies

    NASA Astrophysics Data System (ADS)

    Cederman, Daniel; Hellstrom, Daniel; Sherrill, Joel; Bloom, Gedare; Patte, Mathieu; Zulianello, Marco

    2014-08-01

    When multi-core processors are used in the space industry, they are mostly used in AMP configurations. The cost of increased complexity and difficulty in analyzing SMP systems has been deemed too high in comparison with the benefits of more processing power. A reason for this is the lack of easy to analyze operating systems capable of SMP configurations.In this paper we present an European Space Agency (ESA) activity aimed at bringing easily accessible SMP support to GR712RC and ESA's future Next Generation Microprocessor (NGMP). This will be achieved by extending the RTEMS operating system with SMP capabilities and by providing parallel programming models and related libraries to exploit the intrinsic parallelism of space applications. The work will be validated by porting the single-core Gaia Video Processing Unit space application used in ESA's Gaia satellite project to RTEMS SMP running on GR712RC and NGMP.The paper describes the ongoing effort and gives an overview of the challenges faced in extending a real-time OS to the SMP domain. The activity is funded by ESA under contract 4000108560/13/NL/JK. Gedare Bloom is supported in part by NSF CNS-0934725.

  1. Event parallelism: Distributed memory parallel computing for high energy physics experiments

    SciTech Connect

    Nash, T.

    1989-05-01

    This paper describes the present and expected future development of distributed memory parallel computers for high energy physics experiments. It covers the use of event parallel microprocessor farms, particularly at Fermilab, including both ACP multiprocessors and farms of MicroVAXES. These systems have proven very cost effective in the past. A case is made for moving to the more open environment of UNIX and RISC processors. The 2nd Generation ACP Multiprocessor System, which is based on powerful RISC systems, is described. Given the promise of still more extraordinary increases in processor performance, a new emphasis on point to point, rather than bussed, communication will be required. Developments in this direction are described. 6 figs.

  2. A comparison of multiprocessor scheduling methods for iterative data flow architectures

    NASA Technical Reports Server (NTRS)

    Storch, Matthew

    1993-01-01

    A comparative study is made between the Algorithm to Architecture Mapping Model (ATAMM) and three other related multiprocessing models from the published literature. The primary focus of all four models is the non-preemptive scheduling of large-grain iterative data flow graphs as required in real-time systems, control applications, signal processing, and pipelined computations. Important characteristics of the models such as injection control, dynamic assignment, multiple node instantiations, static optimum unfolding, range-chart guided scheduling, and mathematical optimization are identified. The models from the literature are compared with the ATAMM for performance, scheduling methods, memory requirements, and complexity of scheduling and design procedures.

  3. Nature of the Fatty Acid Synthetase Systems in Parenchymal and Epidermal Cells of Allium porrum L. Leaves 1

    PubMed Central

    Lessire, Rene; Stumpe, Paul K.

    1983-01-01

    Fatty acid synthesis was compared in cell-free extracts of epidermis and parenchyma of Allium porrum L. leaves. Parenchyma extracts had the major fatty acid synthetase (FAS) activity (70-90%) of the whole leaf; palmitic acid was also the major fatty acid synthesized when acetyl-coenzyme A (CoA) was the primer, but when acetyl-acyl carrier protein (ACP) was employed, C18:0 and C16:0 were synthesized in equal proportion. With the epidermal FAS system when either acetyl-CoA or acetyl-ACP was tested in the presence of labeled malonyl-CoA, palmitic acid was the only product synthesized. Specific activities of the FAS enzyme activities were determined in both tissue extracts. The properties of malonyl-CoA:ACP transacylase were examined from the two different tissues. The molecular weights estimated by Sephadex G-200 chromatography were 38,000 for the epidermal enzyme and 45,000 for parenchymal enzyme. The optimal pH was for both enzymes 7.8 to 8.0 and the maximal velocity 0.4 to 0.5 micromoles per milligram protein per minute. These enzymes had different affinities for malonyl-CoA and ACP. For the malonyl-CoA:ACP transacylase of epidermis, the Km values were 5.6 and 13.7 micromolar for malonyl-CoA and ACP, respectively, and 4.2 and 21.7 micromolar for the parenchymal enzyme. These results suggest that the FAS system in both tissues are nonassociated, that the malonyl-CoA:ACP transacylases are isozymes, and that both in epidermis and in parenchyma tissue two independent FAS system occur. Evidence would suggest that β-ketoacyl-ACP synthase II is present in the parenchymal cells but missing in the epidermal cell. PMID:16663268

  4. Recent advances in inhibitors of bacterial fatty acid synthesis type II (FASII) system enzymes as potential antibacterial agents.

    PubMed

    Wang, Yi; Ma, Shutao

    2013-10-01

    Bacterial infections are a constant and serious threat to human health. With the increase of multidrug resistance of clinically pathogenic bacteria, common antibiotic therapies have been less effective. Fatty acid synthesis type II (FASII) system enzymes are essential for bacterial membrane lipid biosynthesis and represent increasingly promising targets for the discovery of antibacterial agents with new mechanisms of action. This review highlights recent advances in inhibitors of bacterial FASII as potential antibacterial agents, paying special attention to the activities, mechanisms, and structure-activity relationships of those inhibitors that mainly target β-ketoacyl-ACP synthase, β-ketoacyl-ACP reductase, β-hydroxyacyl-ACP dehydratase, and enoyl-ACP reductase. Although inhibitors with low nanomolar and selective activity against various bacterial FASII have entered clinical trials, further research is needed to expand upon both available and yet unknown scaffolds to identify new FASII inhibitors that may have antibacterial potential, particularly against resistant bacterial strains.

  5. A Self Consistent Multiprocessor Space Charge Algorithm that is Almost Embarrassingly Parallel

    SciTech Connect

    Edward Nissen, B. Erdelyi, S.L. Manikonda

    2012-07-01

    We present a space charge code that is self consistent, massively parallelizeable, and requires very little communication between computer nodes; making the calculation almost embarrassingly parallel. This method is implemented in the code COSY Infinity where the differential algebras used in this code are important to the algorithm's proper functioning. The method works by calculating the self consistent space charge distribution using the statistical moments of the test particles, and converting them into polynomial series coefficients. These coefficients are combined with differential algebraic integrals to form the potential, and electric fields. The result is a map which contains the effects of space charge. This method allows for massive parallelization since its statistics based solver doesn't require any binning of particles, and only requires a vector containing the partial sums of the statistical moments for the different nodes to be passed. All other calculations are done independently. The resulting maps can be used to analyze the system using normal form analysis, as well as advance particles in numbers and at speeds that were previously impossible.

  6. Parallel variable-band Choleski solvers for computational structural analysis applications on vector multiprocessor supercomputers

    NASA Technical Reports Server (NTRS)

    Poole, E. L.; Overman, A. L.

    1991-01-01

    A Choleski method used to solve linear systems of equations that arise in large scale structural analyses is described. The method uses a novel variable-band storage scheme and is structured to exploit fast local memory caches while minimizing data access delays between main memory and vector registers. Several parallel implementations of this method are described for the CRAY-2 and CRAY Y-MP computers demonstrating the use of microtasking and autotasking directives. A portable parallel language, FORCE, is also used for two different parallel implementations, demonstrating the use of CRAY macrotasking. Results are presented comparing the matrix factorization times for three representative structural analysis problems from runs made in both dedicated and multi-user modes on both the CRAY-2 and CRAY Y-MP computers. CPU and wall clock timings are given for the various parallel methods and are compared to single processor timings of the same algorithm. Computation rates over 1 GIGAFLOP (1 billion floating point operations per second) on a four processor CRAY-2 and over 2 GIGAFLOPS on an eight processor CRAY Y-MP are demonstrated as measured by wall clock time in a dedicated environment. Reduced wall clock times for the parallel methods relative to the single processor implementation of the same Choleski algorithm are also demonstrated for runs made in multi-user mode.

  7. Experimental demonstration of the optical multi-mesh hypercube: scaleable interconnection network for multiprocessors and multicomputers

    NASA Astrophysics Data System (ADS)

    Louri, Ahmed; Furlonge, Stephen; Neocleous, Costas

    1996-12-01

    A prototype of a novel topology for scaleable optical interconnection networks called the optical multi-mesh hypercube (OMMH) is experimentally demonstrated to as high as a 150-Mbit s data rate (2 7 1 nonreturn-to-zero pseudo-random data pattern) at a bit error rate of 10 13 link by the use of commercially available devices. OMMH is a scaleable network Appl. Opt. 33, 7558 (1994); J. Lightwave Technol. 12, 704 (1994) architecture that combines the positive features of the hypercube (small diameter, connectivity, symmetry, simple routing, and fault tolerance) and the mesh (constant node degree and size scaleability). The optical implementation method is divided into two levels: high-density local connections for the hypercube modules, and high-bit-rate, low-density, long connections for the mesh links connecting the hypercube modules. Free-space imaging systems utilizing vertical-cavity surface-emitting laser (VCSEL) arrays, lenslet arrays, space-invariant holographic techniques, and photodiode arrays are demonstrated for the local connections. Optobus fiber interconnects from Motorola are used for the long-distance connections. The OMMH was optimized to operate at the data rate of Motorola s Optobus (10-bit-wide, VCSEL-based bidirectional data interconnects at 150 Mbits s). Difficulties encountered included the varying fan-out efficiencies of the different orders of the hologram, misalignment sensitivity of the free-space links, low power (1 mW) of the individual VCSEL s, and noise.

  8. A Virtual-Time Operating-System Shell For A Hypercube In Robotics Applications

    NASA Astrophysics Data System (ADS)

    Einstein, J. R.; Barhen, J.; Jefferson, D.

    1987-03-01

    Hypercube multiprocessors possess many attributes advantageous for autonomous, intelligent robots which operate in time-critical fashion in hostile environments. However, their message-passing architecture presents certain dif-ficulties in rapid changes of plans in response to unpredictable events in the environment. The status of a "virtual-time" operating-system shell, providing functions which facilitate such responses, is described.

  9. An integrated data acquisition and analysis system at GSI

    SciTech Connect

    Essel, H.G.; Hoffmann, J.; Richter, M.; Sohlbach, H.; Spreng )

    1989-10-01

    GOOSY, the GSI data acquisition and analysis system has been extended to handle experimental set-ups and data from heavy-ion experiments at high energies. A new front-end system has been designed and built. It is a VME based multi-processor system connected to CAMAC and FASTBUS via standard VSB. This system allows pre-analysis and filtering of the raw data. The architecture of the system is presented and a status report is given in this paper.

  10. Numerical simulation of unsteady vortex structures in near wake of poorly streamlined bodies on multiprocessor computer system

    NASA Astrophysics Data System (ADS)

    Babakov, A. V.; Novikov, P. A.

    2011-02-01

    On the basis of the conservative difference method, spatially unsteady flows near complexly shaped objects are studied. The mathematical model is based on the inviscid gas model. For subsonic, transonic, and supersonic regimes, the nonstationary aerodynamics of various aerospace objects is examined. The three-dimensional structure of the unsteady vortex near wake and its influence on the basic aerodynamic characteristics of aerial vehicles are visualized. The numerical simulation is performed using parallel algorithms on supercomputers of cluster architecture.

  11. DAPHNE: a parallel multiprocessor data acquisition system for nuclear physics. [Data Acquisition by Parallel Histogramming and NEtworking

    SciTech Connect

    Welch, L.C.

    1984-01-01

    This paper describes a project to meet these data acquisition needs for a new accelerator, ATLAS, being built at Argonne National Laboratory. ATLAS is a heavy-ion linear superconducting accelerator providing beam energies up to 25 MeV/A with a relative spread in beam energy as good as .0001 and a time spread of less than 100 psec. Details about the hardware front end, command language, data structure, and the flow of event treatment are covered.

  12. Structural and biological evaluation of a novel series of benzimidazole inhibitors of Francisella tularensis enoyl-ACP reductase (FabI).

    PubMed

    Mehboob, Shahila; Song, Jinhua; Hevener, Kirk E; Su, Pin-Chih; Boci, Teuta; Brubaker, Libby; Truong, Lena; Mistry, Tina; Deng, Jiangping; Cook, James L; Santarsiero, Bernard D; Ghosh, Arun K; Johnson, Michael E

    2015-03-15

    Francisella tularensis, the causative agent of tularemia, presents a significant biological threat and is a Category A priority pathogen due to its potential for weaponization. The bacterial FASII pathway is a viable target for the development of novel antibacterial agents treating Gram-negative infections. Here we report the advancement of a promising series of benzimidazole FabI (enoyl-ACP reductase) inhibitors to a second-generation using a systematic, structure-guided lead optimization strategy, and the determination of several co-crystal structures that confirm the binding mode of designed inhibitors. These compounds display an improved low nanomolar enzymatic activity as well as promising low microgram/mL antibacterial activity against both F. tularensis and Staphylococcus aureus and its methicillin-resistant strain (MRSA). The improvements in activity accompanying structural modifications lead to a better understanding of the relationship between the chemical structure and biological activity that encompasses both enzymatic and whole-cell activity.

  13. Discovery of new potential hits of Plasmodium falciparum enoyl-ACP reductase through ligand- and structure-based drug design approaches.

    PubMed

    Neves, Bruno J; Bueno, Renata V; Braga, Rodolpho C; Andrade, Carolina H

    2013-04-15

    We here report the discovery of novel Plasmodium falciparum enoyl-ACP reductase (PfENR) inhibitors as new antimalarial hits through ligand- and structure-based drug design approaches. We performed 2D and 3D QSAR studies on a set of rhodanine analogues using hologram QSAR (HQSAR), comparative molecular field analysis (CoMFA) and comparative molecular similarity indices analysis (CoMSIA) techniques. Statistical and satisfactory results were obtained for the best HQSAR (r(2) of 0.968 and qLOO(2) of 0.751), CoMFA (r(2) of 0.955 and qLOO(2) of 0.806) and CoMSIA (r(2) of 0.965 and qLOO(2) of 0.659) models. The information gathered from the QSAR models guided us to design new PfENR inhibitors. Three new hits were predicted with potency in the submicromolar range and presented drug-like properties.

  14. AFN-1252 is a potent inhibitor of enoyl-ACP reductase from Burkholderia pseudomallei—Crystal structure, mode of action, and biological activity

    PubMed Central

    Narasimha Rao, Krishnamurthy; Lakshminarasimhan, Anirudha; Joseph, Sarah; Lekshmi, Swathi U; Lau, Ming-Seong; Takhi, Mohammed; Sreenivas, Kandepu; Nathan, Sheila; Yusof, Rohana; Abd Rahman, Noorsaadah; Ramachandra, Murali; Antony, Thomas; Subramanya, Hosahalli

    2015-01-01

    Melioidosis is a tropical bacterial infection caused by Burkholderia pseudomallei (B. pseudomallei; Bpm), a Gram-negative bacterium. Current therapeutic options are largely limited to trimethoprim-sulfamethoxazole and β-lactam drugs, and the treatment duration is about 4 months. Moreover, resistance has been reported to these drugs. Hence, there is a pressing need to develop new antibiotics for Melioidosis. Inhibition of enoyl-ACP reducatase (FabI), a key enzyme in the fatty acid biosynthesis pathway has shown significant promise for antibacterial drug development. FabI has been identified as the major enoyl-ACP reductase present in B. pseudomallei. In this study, we evaluated AFN-1252, a Staphylococcus aureus FabI inhibitor currently in clinical development, for its potential to bind to BpmFabI enzyme and inhibit B. pseudomallei bacterial growth. AFN-1252 stabilized BpmFabI and inhibited the enzyme activity with an IC50 of 9.6 nM. It showed good antibacterial activity against B. pseudomallei R15 strain, isolated from a melioidosis patient (MIC of 2.35 mg/L). X-ray structure of BpmFabI with AFN-1252 was determined at a resolution of 2.3 Å. Complex of BpmFabI with AFN-1252 formed a symmetrical tetrameric structure with one molecule of AFN-1252 bound to each monomeric subunit. The kinetic and thermal melting studies supported the finding that AFN-1252 can bind to BpmFabI independent of cofactor. The structural and mechanistic insights from these studies might help the rational design and development of new FabI inhibitors. PMID:25644789

  15. A new strategy for strain improvement of Aurantiochytrium sp. based on heavy-ions mutagenesis and synergistic effects of cold stress and inhibitors of enoyl-ACP reductase.

    PubMed

    Cheng, Yu-Rong; Sun, Zhi-Jie; Cui, Gu-Zhen; Song, Xiaojin; Cui, Qiu

    2016-11-01

    Developing a strain with high docosahexaenoic acid (DHA) yield and stable fermenting-performance is an imperative way to improve DHA production using Aurantiochytrium sp., a microorganism with two fatty acid synthesis pathways: polyketide synthase (PKS) pathway and Type I fatty acid synthase (FAS) pathway. This study investigated the growth and metabolism response of Aurantiochytrium sp. CGMCC 6208 to two inhibitors of enoyl-ACP reductase of Type II FAS pathway (isoniazid and triclosan), and proposed a method of screening high DHA yield Aurantiochytrium sp. strains with heavy ion mutagenesis and pre-selection by synergistic usage of cold stress (4°C) and FAS inhibitors (triclosan and isoniazid). Results showed that (1) isoniazid and triclosan have positive effects on improving DHA level of cells; (2) mutants from irradiation dosage of 120Gy yielded more DHA compared with cells from 40Gy, 80Gy treatment and wild type; (3) DHA contents of mutants pre-selected by inhibitors of enoyl-ACP reductase of Type II FAS pathway (isoniazid and triclosan)at 4°C, were significantly higher than that of wild type; (4) compared to the wild type, the DHA productivity and yield of a mutant (T-99) obtained from Aurantiochytrium sp. CGMCC 6208 by the proposed method increased by 50% from 0.18 to 0.27g/Lh and 30% from 21 to 27g/L, respectively. In conclusion, this study developed a feasible method to screen Aurantiochytrium sp. with high DHA yield by a combination of heavy-ion mutagenesis and mutant-preselection by FAS inhibitors and cold stress.

  16. Insights from computational analysis of full-length β-ketoacyl-[ACP] synthase-II cDNA isolated from American and African oil palms

    PubMed Central

    Bhore, Subhash J.; Cha, Thye S.; Amelia, Kassim; Shah, Farida H.

    2014-01-01

    Background: Palm oil derived from fruits (mesocarp) of African oil palm (Elaeis guineensis Jacq. Tenera) and American oil palm (E. oleifera) is important for food industry. Due to high yield, Elaeis guineensis (Tenera) is cultivated on commercial scale, though its oil contains high (~54%) level of saturated fatty acids. The rate-limiting activity of beta-ketoacyl-[ACP] synthase-II (KAS-II) is considered mainly responsible for the high (44%) level of palmitic acid (C16:0) in the oil obtained from E. guineensis. Objective: The objective of this study was to annotate KAS-II cDNA isolated from American and African oil palms. Materials and Methods: The full-length E. oleifera KAS-II (EoKAS-II) cDNA clone was isolated using random method of gene isolation. Whereas, the E. guineensis KAS-II (EgTKAS-II) cDNA was isolated using reverse transcriptase polymerase chain reaction (RT-PCR) technique; and missing ends were obtained by employing 5’and 3’ RACE technique. Results: The results show that EoKAS-II and EgTKAS-II open reading frames (ORFs) are of 1689 and 1721 bp in length, respectively. Further analysis of the both EoKAS-II and EgTKAS-II predicted protein illustrates that they contains conserved domains for ‘KAS-I and II’, ‘elongating’ condensing enzymes, ‘condensing enzymes super-family’, and ‘3-oxoacyl-[ACP] synthase II’. The predicted protein sequences shows 95% similarity with each other. Consecutively, the three active sites (Cys, His, and His) were identified in both proteins. However, difference in positions of two active Histidine (His) residues was noticed. Conclusion: These insights may serve as the foundation in understanding the variable activity of KAS-II in American and African oil palms; and cDNA clones could be useful in the genetic engineering of oil palms. PMID:24678202

  17. A parallel numerical simulation for supersonic flows using zonal overlapped grids and local time steps for common and distributed memory multiprocessors

    SciTech Connect

    Patel, N.R.; Sturek, W.B.; Hiromoto, R.

    1989-01-01

    Parallel Navier-Stokes codes are developed to solve both two- dimensional and three-dimensional flow fields in and around ramjet and nose tip configurations. A multi-zone overlapped grid technique is used to extend an explicit finite-difference method to more complicated geometries. Parallel implementations are developed for execution on both distributed and common-memory multiprocessor architectures. For the steady-state solutions, the use of the local time-step method has the inherent advantage of reducing the communications overhead commonly incurred by parallel implementations. Computational results of the codes are given for a series of test problems. The parallel partitioning of computational zones is also discussed. 5 refs., 18 figs.

  18. Distributed Optimization System

    DOEpatents

    Hurtado, John E.; Dohrmann, Clark R.; Robinett, III, Rush D.

    2004-11-30

    A search system and method for controlling multiple agents to optimize an objective using distributed sensing and cooperative control. The search agent can be one or more physical agents, such as a robot, and can be software agents for searching cyberspace. The objective can be: chemical sources, temperature sources, radiation sources, light sources, evaders, trespassers, explosive sources, time dependent sources, time independent sources, function surfaces, maximization points, minimization points, and optimal control of a system such as a communication system, an economy, a crane, and a multi-processor computer.

  19. Evaluating the Effect of CPP-ACP as a Final Irrigant in Improving the Micro-Hardness of Erosive Root Dentin and its Influence on the Bond Strength of Self Etch Resin Sealer – An In-vitro Study

    PubMed Central

    Bollineni, Swetha; Janga, Ravi Kumar; Saraswati, Disha; Babu, Mandava Ramesh

    2016-01-01

    Introduction Smear layer removal from the root canal wall involves the use of 17% EDTA and 5.25% sodium hypochlorite, which thereby improves the adhesion of obturating materials to root dentin. But these chemical irrigants have shown to decrease micro hardness, increase roughness, cause erosion and reduce the root dentin fracture toughness. To combat these adverse effects, studies can be focussed on the remineralisation of the erosive root dentin and this novel idea has been utilized in the present study. Aim To evaluate the micro hardness of erosive root dentin when Casein Phosphopeptide–Amorphous Calcium Phosphate (CPP-ACP) was used as a final irrigant and its influence on resin sealer bonding tested by push-out bond strength method. Materials and Methods Sixty extracted maxillary incisors were divided into three groups based on the final irrigation protocol. Group 1-normal saline, Group 2-17% EDTA (Ethylene Diamine Tetraacetic Acid) + 5.25% NaOCl (Sodium Hypochlorite), Group 3 - 17% EDTA + 5.25% NaOCl + CPP-ACP; each group was divided into two subgroups. Half the specimens of each group were evaluated for Vicker’s micro hardness test after the treatment. In continuation with the above methodology the remaining specimens were tested for push-out bond strength after obturation of the specimens with self etch adhesive resin sealer and conventional 6% gutta percha cones. Results Micro hardness was statistically analysed using Kruskal Wallis test and push-out bond strength was evaluated using Mann Whitney test and paired t-test. CPP-ACP treated group showed increased micro hardness (p<0.05). There was no statistically significant difference between the push-out bond strength values between group EDTA + NaOCl group and EDTA + NaOCl + CPP-ACP group. Conclusion Within the limitations of this study it can be concluded that, CPP-ACP improved the micro hardness of erosive root dentin and is not affecting its bond strength. Therefore, CPP-ACP may be used before bonding

  20. Identification of amino acid residues involved in substrate specificity of plant acyl-ACP thioesterases using a bioinformatics-guided approach

    PubMed Central

    Mayer, Kimberly M; Shanklin, John

    2007-01-01

    Background The large amount of available sequence information for the plant acyl-ACP thioesterases (TEs) made it possible to use a bioinformatics-guided approach to identify amino acid residues involved in substrate specificity. The Conserved Property Difference Locator (CPDL) program allowed the identification of putative specificity-determining residues that differ between the FatA and FatB TE classes. Six of the FatA residue differences identified by CPDL were incorporated into the FatB-like parent via site-directed mutagenesis and the effect of each on TE activity was determined. Variants were expressed in E. coli strain K27 that allows determination of enzyme activity by GCMS analysis of fatty acids released into the medium. Results Substitutions at four of the positions (74, 86, 141, and 174) changed substrate specificity to varying degrees while changes at the remaining two positions, 110 and 221, essentially inactivated the thioesterase. The effects of substitutions at positions 74, 141, and 174 (3-MUT) or 74, 86, 141, 174 (4-MUT) were not additive with respect to specificity. Conclusion Four of six putative specificity determining positions in plant TEs, identified with the use of CPDL, were validated experimentally; a novel colorimetric screen that discriminates between active and inactive TEs is also presented. PMID:17201914

  1. Modulation of Medium-Chain Fatty Acid Synthesis in Synechococcus sp. PCC 7002 by Replacing FabH with a Chaetoceros Ketoacyl-ACP Synthase

    PubMed Central

    Gu, Huiya; Jinkerson, Robert E.; Davies, Fiona K.; Sisson, Lyle A.; Schneider, Philip E.; Posewitz, Matthew C.

    2016-01-01

    The isolation or engineering of algal cells synthesizing high levels of medium-chain fatty acids (MCFAs) is attractive to mitigate the high clouding point of longer chain fatty acids in algal based biodiesel. To develop a more informed understanding of MCFA synthesis in photosynthetic microorganisms, we isolated several algae from Great Salt Lake and screened this collection for MCFA accumulation to identify strains naturally accumulating high levels of MCFA. A diatom, Chaetoceros sp. GSL56, accumulated particularly high levels of C14 (up to 40%), with the majority of C14 fatty acids allocated in triacylglycerols. Using whole cell transcriptome sequencing and de novo assembly, putative genes encoding fatty acid synthesis enzymes were identified. Enzymes from this Chaetoceros sp. were expressed in the cyanobacterium Synechococcus sp. PCC 7002 to validate gene function and to determine whether eukaryotic enzymes putatively lacking bacterial evolutionary control mechanisms could be used to improve MCFA production in this promising production strain. Replacement of the Synechococcus 7002 native FabH with a Chaetoceros ketoacyl-ACP synthase III increased MCFA synthesis up to fivefold. The level of increase is dependent on promoter strength and culturing conditions. PMID:27303412

  2. Inhibitory effects on bacterial growth and beta-ketoacyl-ACP reductase by different species of maple leaf extracts and tannic acid.

    PubMed

    Wu, Dan; Wu, Xiao-Dong; You, Xue-Fu; Ma, Xiao-Feng; Tian, Wei-Xi

    2010-01-01

    It is important to develop new antibiotics aimed at novel targets. The investigation found that the leaf extracts from five maples (Acer platanoides, Acer campestre, Acer rubrum, Acer saccharum and Acer truncatum Bunge collected in Denmark, Canada and China) and their component tannic acid displayed antibacterial ability against 24 standard bacteria strains with the minimum inhibitory concentration of 0.3-8.0 mg/mL. Unlike the standard antibiotic levofloxacin (LFX), these samples inhibited Gram-positive bacteria more effectively than they inhibited Gram-negative bacteria. These samples effectively inhibited two antidrug bacterial strains. The results show that these samples inhibit bacteria by a different mechanism from LFX. These samples potently inhibited b-ketoacyl-ACP reductase (FabG), which is an important enzyme in bacterial fatty acid synthesis. Tannic acid showed the strongest inhibition on FabG with a half inhibition concentration of 0.78 microM (0.81 microg/mL). Furthermore, tannic acid and two maple leaf extracts showed time-dependent irreversible inhibition of FabG. These three samples also exhibited better inhibition on bacteria. It is suggested that FabG is the antibacteria target of maple leaf extracts and tannic acid, and both reversible and irreversible inhibitions of FabG are important for the antibacterial effect.

  3. Cloning, expression, crystallization and preliminary X-ray crystallographic analysis of beta-ketoacyl-ACP synthase III (FabH) from Xanthomonas oryzae pv. oryzae.

    PubMed

    Huynh, Kim Hung; Natarajan, Sampath; Song, Na Hyun; Ngo, Phuong Thuy Ho; Ahn, Yeh Jin; Kim, Jeong Gu; Lee, Byoung Moo; Eo, Yang Dam; Kang, Lin Woo

    2009-05-01

    The bacterial beta-ketoacyl-ACP synthase III (KASIII) encoded by the gene fabH (Xoo4209) from Xanthomonas oryzae pv. oryzae, a plant pathogen, is an important enzyme in the elongation steps of fatty-acid biosynthesis. It is expected to be one of the enzymes responsible for bacterial blight (BB), a serious disease that results in huge production losses of rice. As it represents an important target for the development of new antibacterial drugs against BB, determination of the crystal structure of the KAS III enzyme is essential in order to understand its reaction mechanism. In order to analyze the structure and function of KAS III, the fabH (Xoo4209) gene was cloned and the enzyme was expressed and purified. The KASIII crystal diffracted to 2.05 A resolution and belonged to the orthorhombic space group P2(1)2(1)2, with unit-cell parameters a = 69.8, b = 79.5, c = 62.3 A. The unit-cell volume of the crystal is compatible with the presence of a single monomer in the asymmetric unit, with a corresponding Matthews coefficient V(M) of 2.27 A(3) Da(-1) and a solvent content of 45.8%.

  4. Design, synthesis, and biological and crystallographic evaluation of novel inhibitors of Plasmodium falciparum enoyl-ACP-reductase (PfFabI).

    PubMed

    Belluti, Federica; Perozzo, Remo; Lauciello, Leonardo; Colizzi, Francesco; Kostrewa, Dirk; Bisi, Alessandra; Gobbi, Silvia; Rampa, Angela; Bolognesi, Maria Laura; Recanatini, Maurizio; Brun, Reto; Scapozza, Leonardo; Cavalli, Andrea

    2013-10-10

    Malaria, a disease of worldwide significance, is responsible for over one million deaths annually. The liver-stage of Plasmodium's life cycle is the first, obligatory, but clinically silent step in malaria infection. The P. falciparum type II fatty acid biosynthesis pathway (PfFAS-II) has been found to be essential for complete liver-stage development and has been regarded as a potential antimalarial target for the development of drugs for malaria prophylaxis and liver-stage eradication. In this paper, new coumarin-based triclosan analogues are reported and their biological profile is explored in terms of inhibitory potency against enzymes of the PfFAS-II pathway. Among the tested compounds, 7 and 8 showed the highest inhibitory potency against Pf enoyl-ACP-reductase (PfFabI), followed by 15 and 3. Finally, we determined the crystal structures of compounds 7 and 11 in complex with PfFabI to identify their mode of binding and to confirm outcomes of docking simulations.

  5. Structural and biological evaluation of a novel series of benzimidazole inhibitors of Francisella tularensis enoyl-ACP reductase (FabI)

    SciTech Connect

    Mehboob, Shahila; Song, Jinhua; Hevener, Kirk E.; Su, Pin-Chih; Boci, Teuta; Brubaker, Libby; Truong, Lena; Mistry, Tina; Deng, Jiangping; Cook, James L.; Santarsiero, Bernard D.; Ghosh, Arun K.; Johnson, Michael E.

    2015-01-29

    Francisella tularensis, the causative agent of tularemia, presents a significant biological threat and is a Category A priority pathogen due to its potential for weaponization. In the bacterial FASII pathway we found it a viable target for the development of novel antibacterial agents treating Gram-negative infections. Here, we report the advancement of a promising series of benzimidazole FabI (enoyl-ACP reductase) inhibitors to a second-generation using a systematic, structure-guided lead optimization strategy, and the determination of several co-crystal structures that confirm the binding mode of designed inhibitors. Furthermore, these compounds display an improved low nanomolar enzymatic activity as well as promising low microgram/mL antibacterial activity against both F. tularensis and Staphylococcus aureus and its methicillin-resistant strain (MRSA). Finally, the improvements in activity accompanying structural modifications lead to a better understanding of the relationship between the chemical structure and biological activity that encompasses both enzymatic and whole-cell activity.

  6. Structural and biological evaluation of a novel series of benzimidazole inhibitors of Francisella tularensis enoyl-ACP reductase (FabI)

    DOE PAGES

    Mehboob, Shahila; Song, Jinhua; Hevener, Kirk E.; ...

    2015-01-29

    Francisella tularensis, the causative agent of tularemia, presents a significant biological threat and is a Category A priority pathogen due to its potential for weaponization. In the bacterial FASII pathway we found it a viable target for the development of novel antibacterial agents treating Gram-negative infections. Here, we report the advancement of a promising series of benzimidazole FabI (enoyl-ACP reductase) inhibitors to a second-generation using a systematic, structure-guided lead optimization strategy, and the determination of several co-crystal structures that confirm the binding mode of designed inhibitors. Furthermore, these compounds display an improved low nanomolar enzymatic activity as well as promisingmore » low microgram/mL antibacterial activity against both F. tularensis and Staphylococcus aureus and its methicillin-resistant strain (MRSA). Finally, the improvements in activity accompanying structural modifications lead to a better understanding of the relationship between the chemical structure and biological activity that encompasses both enzymatic and whole-cell activity.« less

  7. Modulation of medium-chain fatty acid synthesis in Synechococcus sp. PCC 7002 by replacing FabH with a Chaetoceros Ketoacyl-ACP synthase

    DOE PAGES

    Gu, Huiya; Jinkerson, Robert E.; Davies, Fiona K.; ...

    2016-05-26

    The isolation or engineering of algal cells synthesizing high levels of medium-chain fatty acids (MCFAs) is attractive to mitigate the high clouding point of longer chain fatty acids in algal based biodiesel. To develop a more informed understanding of MCFA synthesis in photosynthetic microorganisms, we isolated several algae from Great Salt Lake and screened this collection for MCFA accumulation to identify strains naturally accumulating high levels of MCFA. A diatom, Chaetoceros sp. GSL56, accumulated particularly high levels of C14 (up to 40%), with the majority of C14 fatty acids allocated in triacylglycerols. Using whole cell transcriptome sequencing and de novomore » assembly, putative genes encoding fatty acid synthesis enzymes were identified. Enzymes from this Chaetoceros sp. were expressed in the cyanobacterium Synechococcus sp. PCC 7002 to validate gene function and to determine whether eukaryotic enzymes putatively lacking bacterial evolutionary control mechanisms could be used to improve MCFA production in this promising production strain. Replacement of the Synechococcus 7002 native FabH with a Chaetoceros ketoacyl-ACP synthase Ill increased MCFA synthesis up to fivefold. In conclusion, the level of increase is dependent on promoter strength and culturing conditions.« less

  8. Homology modeling and docking studies of FabH (β-ketoacyl-ACP synthase III) enzyme involved in type II fatty acid biosynthesis of Chlorella variabilis: a potential algal feedstock for biofuel production.

    PubMed

    Misra, Namrata; Patra, Mahesh Chandra; Panda, Prasanna Kumar; Sukla, Lala Bihari; Mishra, Barada Kanta

    2013-03-01

    The concept of using microalgae as an alternative renewable source of biofuel has gained much importance in recent years. However, its commercial feasibility is still an area of concern for researchers. Unraveling the fatty acid metabolic pathway and understanding structural features of various key enzymes regulating the process will provide valuable insights to target microalgae for augmented oil content. FabH (β-ketoacyl-acyl carrier protein synthase; KAS III) is a condensing enzyme catalyzing the initial elongation step of type II fatty acid biosynthetic process and acyl carrier protein (ACP) facilitates the shuttling of the fatty acyl intermediates to the active site of the respective enzymes in the pathway. In the present study, a reliable three-dimensional structure of FabH from Chlorella variabilis, an oleaginous green microalga was modeled and subsequently the key residues involved in substrate binding were determined by employing protein-protein docking and molecular dynamics (MD) simulation protocols. The FabH-ACP complex having the lowest docking energy score showed the binding of ACP to the electropositive FabH surface with strong hydrogen bond interactions. The MD simulation results indicated that the substrate-complexed FabH adopted a more stable conformation than the free enzyme. Further, the FabH structure retained its stability throughout the simulation although noticeable displacements were observed in the loop regions. Molecular simulation studies suggested the importance of crucial hydrogen bonding of the conserved Arg(91) of FabH with Glu(53) and Asp(56) of ACP for exhibiting high affinity between the enzyme and substrate. The molecular modeling results are consistent with available experimental results on the flexibility of FabH and the present study provides first in silico insights into the structural and dynamical aspect of catalytic mechanism of FabH, which could be used for further site-specific mutagenic experiments to develop

  9. DARPA Advanced Cannon Propellant (ACP) Library User’s Guide. Appendix F. Patents Dealing with Fluid Propellant Technology

    DTIC Science & Technology

    1981-06-15

    semicarbazidc melting at 92-95" C. is obtab. following equation: EXAMPLE IV.--SEMICARBAZ I DE-INTRIC (4HsO) 2 CO +2NH 4 .H2O. U ACID- WATER SYSTEM NHzNHCOI.1HMH...cut of azrylamide, methacrylamide, a- 2 -hydroxymethyl acryl - 60 components, than compositions which are merely thick- a.nide, or a-ethyl acrylamide ...poston 10 ( 2 ) ox.gen supplier (parts by weight) ammium 69 63 63 6h (i5 i I ) water - wollen gel of complex niliale iof nontmorillinite sodium nilrate 5 5

  10. Cloning and functional expression of a cDNA encoding stearoyl-ACP Δ9-desaturase from the endosperm of coconut (Cocos nucifera L.).

    PubMed

    Gao, Lingchao; Sun, Ruhao; Liang, Yuanxue; Zhang, Mengdan; Zheng, Yusheng; Li, Dongdong

    2014-10-01

    Coconut (Cocos nucifera L.) is an economically tropical fruit tree with special fatty acid compositions. The stearoyl-acyl carrier protein (ACP) desaturase (SAD) plays a key role in the properties of the majority of cellular glycerolipids. In this paper, a full-length cDNA of a stearoyl-acyl carrier protein desaturase, designated CocoFAD, was isolated from cDNA library prepared from the endosperm of coconut (C. nucifera L.). An 1176 bp cDNA from overlapped PCR products containing ORF encoding a 391-amino acid (aa) protein was obtained. The coded protein was virtually identical and shared the homology to other Δ9-desaturase plant sequences (greater than 80% as similarity to that of Elaeis guineensis Jacq). The real-time fluorescent quantitative PCR result indicated that the yield of CocoFAD was the highest in the endosperm of 8-month-old coconut and leaf, and the yield was reduced to 50% of the highest level in the endosperm of 15-month-old coconut. The coding region showed heterologous expression in strain INVSc1 of yeast (Saccharomyces cerevisiae). GC-MS analysis showed that the levels of palmitoleic acid (16:1) and oleic acid (18:1) were improved significantly; meanwhile stearic acid (18:0) was reduced. These results indicated that the plastidial Δ9 desaturase from the endosperm of coconut was involved in the biosynthesis of hexadecenoic acid and octadecenoic acid, which was similar with other plants. These results may be valuable for understanding the mechanism of fatty acid metabolism and the genetic improvement of CocoFAD gene in palm plants in the future.

  11. Inhibiting activities of the secondary metabolites of Phlomis brunneogaleata against parasitic protozoa and plasmodial enoyl-ACP Reductase, a crucial enzyme in fatty acid biosynthesis.

    PubMed

    Kirmizibekmez, Hasan; Calis, Ihsan; Perozzo, Remo; Brun, Reto; Dönmez, Ali A; Linden, Anthony; Rüedi, Peter; Tasdemir, Deniz

    2004-08-01

    Anti-plasmodial activity-guided fractionation of Phlomis brunneogaleata (Lamiaceae) led to the isolation of two new metabolites, the iridoid glycoside, brunneogaleatoside and a new pyrrolidinium derivative (2 S,4 R)-2-carboxy-4-( E)- p-coumaroyloxy-1,1-dimethylpyrrolidinium inner salt [(2 S,4 R)-1,1-dimethyl-4-( E)- p-coumaroyloxyproline inner salt]. Moreover, a known iridoid glycoside, ipolamiide, six known phenylethanoid glycosides, verbascoside, isoverbascoside, forsythoside B, echinacoside, glucopyranosyl-(1-->G (i)-6)-martynoside and integrifolioside B, two flavone glycosides, luteolin 7- O-beta- D-glucopyranoside ( 10) and chrysoeriol 7- O-beta- D-glucopyranoside ( 11), a lignan glycoside liriodendrin, an acetophenone glycoside 4-hydroxyacetophenone 4- O-(6'- O-beta- D-apiofuranosyl)-beta- D-glucopyranoside and three caffeic acid esters, chlorogenic acid, 3-O-caffeoylquinic acid methyl ester and 5- O-caffeoylshikimic acid were isolated. The structures of the pure compounds were elucidated by means of spectroscopic methods (UV, IR, MS, 1D and 2D NMR, [alpha] (D)) and X-ray crystallography. Compounds 10 and 11 were determined to be the major anti-malarial principles of the crude extract (IC (50) values of 2.4 and 5.9 micrograms/mL, respectively). They also exhibited significant leishmanicidal activity (IC (50) = 1.1 and 4.1 micrograms/mL, respectively). The inhibitory potential of the pure metabolites against plasmodial enoyl-ACP reductase (FabI), which is the key regulator of type II fatty acid synthases (FAS-II) in P. falciparum, was also assessed. Compound 10 showed promising FabI inhibiting effect (IC (50) = 10 micrograms/mL) and appears to be the first anti-malarial natural product targeting FabI of P. falciparum.

  12. Intelligent operating systems for autonomous robots: Real-time capabilities on a hypercube super-computer

    SciTech Connect

    Einstein, J.R.; Barhen, J.; Jefferson, D.

    1986-01-01

    Autonomous robots which must perform time-critical tasks in hostile environments require computers which can perform many asynchronous tasks at extremely high speeds. Certain hypercube multiprocessors have many of the required attributes, but their operating systems must be provided with special functions to improve the capability of the system to respond rapidly to unpredictable events. A ''virtual-time'' shell, under design for addition to the Vertex operating system of the NCUBE hypercube computer, and having such capabilities, is described.

  13. Distributed optimization system and method

    DOEpatents

    Hurtado, John E.; Dohrmann, Clark R.; Robinett, III, Rush D.

    2003-06-10

    A search system and method for controlling multiple agents to optimize an objective using distributed sensing and cooperative control. The search agent can be one or more physical agents, such as a robot, and can be software agents for searching cyberspace. The objective can be: chemical sources, temperature sources, radiation sources, light sources, evaders, trespassers, explosive sources, time dependent sources, time independent sources, function surfaces, maximization points, minimization points, and optimal control of a system such as a communication system, an economy, a crane, and a multi-processor computer.

  14. Digital signal processor and programming system for parallel signal processing

    SciTech Connect

    Van den Bout, D.E.

    1987-01-01

    This thesis describes an integrated assault upon the problem of designing high-throughput, low-cost digital signal-processing systems. The dual prongs of this assault consist of: (1) the design of a digital signal processor (DSP) which efficiently executes signal-processing algorithms in either a uniprocessor or multiprocessor configuration, (2) the PaLS programming system which accepts an arbitrary algorithm, partitions it across a group of DSPs, synthesizes an optimal communication link topology for the DSPs, and schedules the partitioned algorithm upon the DSPs. The results of applying a new quasi-dynamic analysis technique to a set of high-level signal-processing algorithms were used to determine the uniprocessor features of the DSP design. For multiprocessing applications, the DSP contains an interprocessor communications port (IPC) which supports simple, flexible, dataflow communications while allowing the total communication bandwidth to be incrementally allocated to achieve the best link utilization. The net result is a DSP with a simple architecture that is easy to program for both uniprocessor and multi-processor modes of operation. The PaLS programming system simplifies the task of parallelizing an algorithm for execution upon a multiprocessor built with the DSP.

  15. ACP Best Practice No 167

    PubMed Central

    Graham, J; Galloway, A

    2001-01-01

    Urinary tract infection is common, and it is not surprising that urine specimens make up a large proportion of those samples submitted to the routine diagnostic laboratory. Many of these specimens will show no evidence of infection and several methods can be used to screen out negative samples. Those that grow bacteria need to be carefully assessed to quantify the degree of bacteriuria and hence clinical relevance. To influence treatment, a final report should be produced within 24 hours of specimen receipt, with turnaround times continuously monitored. Much work needs to be done to determine the cost effectiveness involved in processing urine specimens and the evidence base for the final report provided. Key Words: laboratory diagnosis • urinary tract infection PMID:11729209

  16. 3-dimensional magnetotelluric inversion including topography using deformed hexahedral edge finite elements and direct solvers parallelized on symmetric multiprocessor computers - Part II: direct data-space inverse solution

    NASA Astrophysics Data System (ADS)

    Kordy, M.; Wannamaker, P.; Maris, V.; Cherkaev, E.; Hill, G.

    2016-01-01

    Following the creation described in Part I of a deformable edge finite-element simulator for 3-D magnetotelluric (MT) responses using direct solvers, in Part II we develop an algorithm named HexMT for 3-D regularized inversion of MT data including topography. Direct solvers parallelized on large-RAM, symmetric multiprocessor (SMP) workstations are used also for the Gauss-Newton model update. By exploiting the data-space approach, the computational cost of the model update becomes much less in both time and computer memory than the cost of the forward simulation. In order to regularize using the second norm of the gradient, we factor the matrix related to the regularization term and apply its inverse to the Jacobian, which is done using the MKL PARDISO library. For dense matrix multiplication and factorization related to the model update, we use the PLASMA library which shows very good scalability across processor cores. A synthetic test inversion using a simple hill model shows that including topography can be important; in this case depression of the electric field by the hill can cause false conductors at depth or mask the presence of resistive structure. With a simple model of two buried bricks, a uniform spatial weighting for the norm of model smoothing recovered more accurate locations for the tomographic images compared to weightings which were a function of parameter Jacobians. We implement joint inversion for static distortion matrices tested using the Dublin secret model 2, for which we are able to reduce nRMS to ˜1.1 while avoiding oscillatory convergence. Finally we test the code on field data by inverting full impedance and tipper MT responses collected around Mount St Helens in the Cascade volcanic chain. Among several prominent structures, the north-south trending, eruption-controlling shear zone is clearly imaged in the inversion.

  17. The Real-Time system for MHD activity control in the FTU tokamak

    NASA Astrophysics Data System (ADS)

    Sozzi, C.; Alessi, E.; Boncagni, L.; Galperti, C.; Marchetto, C.; Nowak, S.; Bin, W.; Botrugno, A.; Bruschi, A.; Cirant, S.; D'Antona, G.; D'Arcangelo, O.; Davoudi, M.; Farina, D.; Ferrero, R.; Figini, L.; Garavaglia, S.; Granucci, G.; Grosso, A.; Iannone, F.; Lazzaro, E.; Moro, A.; Nardone, A.; Mellera, V.; Minelli, D.; Panella, M.; Piergotti, V.; Platania, P.; Ramponi, G.; Simonetto, A.; Tilia, B.; Vitale, E.; Tudisco, O.

    2012-09-01

    The Real-Time system for the control of the magnetohydrodynamics instabilities in FTU tokamak is presented. It is based on both a-priori information derived from statistical treatment of a database and Real-Time elaboration of live diagnostics data. The analysis codes are executed in different time threads based on multi-processors machines. The actuator is the 2×0.4MW 140 GHz ECRH system equipped with the new fast quasi-optical steerable launcher.

  18. Contribution of omega-3 fatty acid desaturase and 3-ketoacyl-ACP synthase II (KASII) genes in the modulation of glycerolipid fatty acid composition during cold acclimation in birch leaves.

    PubMed

    Martz, Françoise; Kiviniemi, Sari; Palva, Tapio E; Sutinen, Marja-Liisa

    2006-01-01

    Temperate and boreal tree species respond to low positive temperatures (LT) or a shortening of the photoperiod (SD) by inducing cold acclimation. One of the metabolic consequences of cold acclimation is an increase in fatty acid (FA) desaturation in membrane lipids, which allows functional membrane fluidity to be maintained at LT. The molecular mechanisms of FA desaturation were investigated in leaves of birch seedlings (Betula pendula) during cold acclimation. Four genes involved in FA biosynthesis were isolated: a 3-ketoacyl-ACP synthase II gene (BpKASII) involved in the elongation of palmitoyl-ACP to stearoyl-ACP, and three omega-3 FA desaturase genes (BpFAD3, BpFAD7, and BpFAD8) involved in the desaturation of linoleic acid (18:2) to alpha-linolenic acid (18:3). BpFAD7 was the main omega-3 FAD gene expressed in birch leaves, and it was down-regulated by LT under SD conditions. LT induced the expression of BpFAD3 and BpFAD8 and a synchronous increase in 18:3 occurred in glycerolipids. Changes in the photoperiod did not affect the LT-induced increase in 18:3 in chloroplast lipids (MGDG, DGDG, PG), but it modulated the LT response detected in extra-chloroplastic lipids (PC, PE, PI, PS). A decrease in the proportion of the 16-carbon FAs in lipids occurred at LT, possibly in relation to the regulation of BpKASII expression at LT. These results suggest that LT affects the whole FA biosynthesis pathway. They support a co-ordinated action of microsomal (BpFAD3) and chloroplast enzymes (BpFAD7, BpFAD8) in determining the level of 18:3 in extra-chloroplastic membranes, and they highlight the importance of dynamic lipid trafficking.

  19. Twelve-month bracket failure rate with amorphous calcium phosphate bonding system.

    PubMed

    Hammad, Shaza M; El Banna, Mai S; Elsaka, Shaymaa E

    2013-10-01

    The aim of the study was to compare the survival rate of orthodontic brackets over a 12-month period using amorphous calcium phosphate (ACP) bonding system with a conventional adhesive (CA). In 30 patients with a mean age of 15 years 7 months, one operator bonded 138 brackets with a split-mouth design, using a resin-based CA and ACP-containing adhesive. The survival rate of the brackets was estimated by Kaplan-Meier analysis. Bracket survival distributions with respect to bonding procedure, dental arch, type of tooth (incisor, canine, and premolar), and patients' gender were compared using the log-rank test. The bond failure interface was determined using the Adhesive Remnant Index (ARI). The bond failure rates of the CA and ACP-containing adhesive were 2.67 and 3.8 per cent, respectively. There was no significant difference between the failure rates of ACP and CA-bonded systems (P > 0.05). Survival rates did not show significant differences between the upper and lower dental arches (P > 0.05). Lower survival rates were found for canine and premolar teeth than incisors (P < 0.05). Bond failure rates were higher for males than females (P < 0.05). There was a significant difference for ARI scores between the adhesive materials (P = 0.028); more of the ACP-based adhesive was left on the tooth at debond. ACP-containing adhesive can be effectively used to bond orthodontic brackets and can serve as a practicable alternative to the conventional bonding adhesives.

  20. RT/OS — realtime programming and application environment for the COSY control system

    NASA Astrophysics Data System (ADS)

    Weinert, A.; Hacker, U.; Haberbosch, Ch.; Henn, K.; Simon, M.

    1994-12-01

    This paper presents the highlights and constraints of RT/OS and how it can be used at other places. The support of approximately 1000 VME and VXI CPUs in network-based multiprocessor systems needs a special set of programming tools and application environment which are bundled as the RT/OS Real-Time-Operating-System. Supporting the Motorola 680χ0 processors and micro-controller with a development system on UNIX and MS-DOS platforms, the tool set gives the opportunity of bringing small embedded controllers as well as VME multiprocessor systems into operation. The tool set includes a cross compiler and a special version of a remote debugger, as well as application support such as downloading and configuration management. The main feature is a modular kernel with message-based task switching, using the rendezvous principle to allow easy extension. Special features of this kernel for a distributed system are networking with the Berkeley socket library supporting TCP/IP, XNS and Novell Netware, a multiprocessor system on VMEbus with the interprocessor Communication Module (IPC), a device driver library for almost every G64 I/O card using a FieldBus Interface called PDV and a X11R4 port.

  1. Modeling of Spacecraft Advanced Chemical Propulsion Systems

    NASA Technical Reports Server (NTRS)

    Benfield, Michael P. J.; Belcher, Jeremy A.

    2004-01-01

    This paper outlines the development of the Advanced Chemical Propulsion System (ACPS) model for Earth and Space Storable propellants. This model was developed by the System Technology Operation of SAIC-Huntsville for the NASA MSFC In-Space Propulsion Project Office. Each subsystem of the model is described. Selected model results will also be shown to demonstrate the model's ability to evaluate technology changes in chemical propulsion systems.

  2. In-Space Chemical Propulsion System Model

    NASA Technical Reports Server (NTRS)

    Byers, David C.; Woodcock, Gordon; Benfield, Michael P. J.

    2004-01-01

    Multiple, new technologies for chemical systems are becoming available and include high temperature rockets, very light propellant tanks and structures, new bipropellant and monopropellant options, lower mass propellant control components, and zero boil off subsystems. Such technologies offer promise of increasing the performance of in-space chemical propulsion for energetic space missions. A mass model for pressure-fed, Earth and space-storable, advanced chemical propulsion systems (ACPS) was developed in support of the NASA MSFC In-Space Propulsion Program. Data from flight systems and studies defined baseline system architectures and subsystems and analyses were formulated for parametric scaling relationships for all ACPS subsystem. The paper will first provide summary descriptions of the approaches used for the systems and the subsystems and then present selected analyses to illustrate use of the model for missions with characteristics of current interest.

  3. In-Space Chemical Propulsion System Model

    NASA Technical Reports Server (NTRS)

    Byers, David C.; Woodcock, Gordon; Benfield, M. P. J.

    2004-01-01

    Multiple, new technologies for chemical systems are becoming available and include high temperature rockets, very light propellant tanks and structures, new bipropellant and monopropellant options, lower mass propellant control components, and zero boil off subsystems. Such technologies offer promise of increasing the performance of in-space chemical propulsion for energetic space missions. A mass model for pressure-fed, Earth and space-storable, advanced chemical propulsion systems (ACPS) was developed in support of the NASA MSFC In-Space Propulsion Program. Data from flight systems and studies defined baseline system architectures and subsystems and analyses were formulated for parametric scaling relationships for all ACPS subsystems. The paper will first provide summary descriptions of the approaches used for the systems and the subsystems and then present selected analyses to illustrate use of the model for missions with characteristics of current interest.

  4. Parallel processing and expert systems

    NASA Technical Reports Server (NTRS)

    Lau, Sonie; Yan, Jerry C.

    1991-01-01

    Whether it be monitoring the thermal subsystem of Space Station Freedom, or controlling the navigation of the autonomous rover on Mars, NASA missions in the 1990s cannot enjoy an increased level of autonomy without the efficient implementation of expert systems. Merely increasing the computational speed of uniprocessors may not be able to guarantee that real-time demands are met for larger systems. Speedup via parallel processing must be pursued alongside the optimization of sequential implementations. Prototypes of parallel expert systems have been built at universities and industrial laboratories in the U.S. and Japan. The state-of-the-art research in progress related to parallel execution of expert systems is surveyed. The survey discusses multiprocessors for expert systems, parallel languages for symbolic computations, and mapping expert systems to multiprocessors. Results to date indicate that the parallelism achieved for these systems is small. The main reasons are (1) the body of knowledge applicable in any given situation and the amount of computation executed by each rule firing are small, (2) dividing the problem solving process into relatively independent partitions is difficult, and (3) implementation decisions that enable expert systems to be incrementally refined hamper compile-time optimization. In order to obtain greater speedups, data parallelism and application parallelism must be exploited.

  5. Implementation of parallel matrix decomposition for NIKE3D on the KSR1 system

    SciTech Connect

    Su, Philip S.; Fulton, R.E.; Zacharia, T.

    1995-06-01

    New massively parallel computer architecture has revolutionized the design of computer algorithms and promises to have significant influence on algorithms for engineering computations. Realistic engineering problems using finite element analysis typically imply excessively large computational requirements. Parallel supercomputers that have the potential for significantly increasing calculation speeds can meet these computational requirements. This report explores the potential for the parallel Cholesky (U{sup T}DU) matrix decomposition algorithm on NIKE3D through actual computations. The examples of two- and three-dimensional nonlinear dynamic finite element problems are presented on the Kendall Square Research (KSR1) multiprocessor system, with 64 processors, at Oak Ridge National Laboratory. The numerical results indicate that the parallel Cholesky (U{sup T}DU) matrix decomposition algorithm is attractive for NIKE3D under multi-processor system environments.

  6. Distributed Virtual System (DIVIRS) Project

    NASA Technical Reports Server (NTRS)

    Schorr, Herbert; Neuman, B. Clifford

    1993-01-01

    As outlined in our continuation proposal 92-ISI-50R (revised) on contract NCC 2-539, we are (1) developing software, including a system manager and a job manager, that will manage available resources and that will enable programmers to program parallel applications in terms of a virtual configuration of processors, hiding the mapping to physical nodes; (2) developing communications routines that support the abstractions implemented in item one; (3) continuing the development of file and information systems based on the virtual system model; and (4) incorporating appropriate security measures to allow the mechanisms developed in items 1 through 3 to be used on an open network. The goal throughout our work is to provide a uniform model that can be applied to both parallel and distributed systems. We believe that multiprocessor systems should exist in the context of distributed systems, allowing them to be more easily shared by those that need them. Our work provides the mechanisms through which nodes on multiprocessors are allocated to jobs running within the distributed system and the mechanisms through which files needed by those jobs can be located and accessed.

  7. DIstributed VIRtual System (DIVIRS) project

    NASA Technical Reports Server (NTRS)

    Schorr, Herbert; Neuman, Clifford B.

    1995-01-01

    As outlined in our continuation proposal 92-ISI-50R (revised) on NASA cooperative agreement NCC2-539, we are (1) developing software, including a system manager and a job manager, that will manage available resources and that will enable programmers to develop and execute parallel applications in terms of a virtual configuration of processors, hiding the mapping to physical nodes; (2) developing communications routines that support the abstractions implemented in item one; (3) continuing the development of file and information systems based on the Virtual System Model; and (4) incorporating appropriate security measures to allow the mechanisms developed in items 1 through 3 to be used on an open network. The goal throughout our work is to provide a uniform model that can be applied to both parallel and distributed systems. We believe that multiprocessor systems should exist in the context of distributed systems, allowing them to be more easily shared by those that need them. Our work provides the mechanisms through which nodes on multiprocessors are allocated to jobs running within the distributed system and the mechanisms through which files needed by those jobs can be located and accessed.

  8. DIstributed VIRtual System (DIVIRS) project

    NASA Technical Reports Server (NTRS)

    Schorr, Herbert; Neuman, B. Clifford

    1994-01-01

    As outlined in our continuation proposal 92-ISI-. OR (revised) on NASA cooperative agreement NCC2-539, we are (1) developing software, including a system manager and a job manager, that will manage available resources and that will enable programmers to develop and execute parallel applications in terms of a virtual configuration of processors, hiding the mapping to physical nodes; (2) developing communications routines that support the abstractions implemented in item one; (3) continuing the development of file and information systems based on the Virtual System Model; and (4) incorporating appropriate security measures to allow the mechanisms developed in items 1 through 3 to be used on an open network. The goal throughout our work is to provide a uniform model that can be applied to both parallel and distributed systems. We believe that multiprocessor systems should exist in the context of distributed systems, allowing them to be more easily shared by those that need them. Our work provides the mechanisms through which nodes on multiprocessors are allocated to jobs running within the distributed system and the mechanisms through which files needed by those jobs can be located and accessed.

  9. Distributed Virtual System (DIVIRS) project

    NASA Technical Reports Server (NTRS)

    Schorr, Herbert; Neuman, B. Clifford

    1993-01-01

    As outlined in the continuation proposal 92-ISI-50R (revised) on NASA cooperative agreement NCC 2-539, the investigators are developing software, including a system manager and a job manager, that will manage available resources and that will enable programmers to develop and execute parallel applications in terms of a virtual configuration of processors, hiding the mapping to physical nodes; developing communications routines that support the abstractions implemented; continuing the development of file and information systems based on the Virtual System Model; and incorporating appropriate security measures to allow the mechanisms developed to be used on an open network. The goal throughout the work is to provide a uniform model that can be applied to both parallel and distributed systems. The authors believe that multiprocessor systems should exist in the context of distributed systems, allowing them to be more easily shared by those that need them. The work provides the mechanisms through which nodes on multiprocessors are allocated to jobs running within the distributed system and the mechanisms through which files needed by those jobs can be located and accessed.

  10. QoS Negotiation in Real-Time Systems and its Application to Automated Flight Control

    DTIC Science & Technology

    2000-11-01

    DATE 2000 2. REPORT TYPE 3. DATES COVERED 00-00-2000 to 00-00-2000 4 . TITLE AND SUBTITLE QoS Negotiation in Real-Time Systems and its...Section 2), followed by a description of the proposed QoS- negotiation model (Section 3). Next (Section 4 ), we describe RTPOOL, a distributed...considers precedence and resource constraints. In [ 4 ] and [5], a similar optimal result is derived for multiprocessors, while, in [6], the result is

  11. Topological effects in chiral symmetric driven systems

    NASA Astrophysics Data System (ADS)

    Ho, Derek Y. H.; Gong, Jiangbin

    2014-11-01

    Recent years have seen a strong interest in topological effects within periodically driven systems. In this work, we explore topological effects in two closely related 2-dimensional driven systems described by Floquet operators possessing chiral symmetry (CS). Our numerical and analytical results suggest the following. First, the CS is associated with the existence of the anomalous counterpropagating (ACP) modes reported recently. Specifically, we show that a particular form of CS protects the ACP modes crossing the quasienergy band gap at ±π . We also find that these modes are only present along selected boundaries, suggesting that they are a weak topological effect. Second, we find that CS can give rise to protected 0 and π quasienergy modes, and that the number of these modes may increase without bound as we tune up certain system parameters. Like the ACP modes, these 0 and π modes also appear only along selected boundaries and thus appear to be a weak topological effect. This work represents a detailed study of weak topological effects in periodically driven systems. Our findings add to the still-growing knowledge on driven topological systems.

  12. VLSI Based Multiprocessor Communications Networks.

    DTIC Science & Technology

    1982-09-01

    BENE63: Bones. V.E. MATHEMATICAL THOERY OF illustrated in Figure 10. which provides equal CONNECTING NETWORIS AND TELEPHONE TRAFFIC. Aced. lengths...can be controlled. It should be clear, then, that a connection between two ports of a network can be established by sending into the network a string ...of control digits, each one of which is used to set the connection through a particular switch. This string of digits is called the connection ’header

  13. Sparse Elimination on Vector Multiprocessors.

    DTIC Science & Technology

    2014-09-26

    vector registers . Several reports have been prepared recently under this effort, and a paper entitled "Task Granularity Studies in a Many-Processor Cray X...measures this effect. To reduce this ratio, it has been shown * possible to assembly-code the X-MP so that accesses are pre-fetched into vector registers

  14. Multiprocessor Realization of Neural Networks

    DTIC Science & Technology

    1990-04-01

    based on the concc ’- , f program decom- position , load balancing, communication overhead, and process synchroniza- tion. Four methodologies are then...or in other words, it denotes how much a change in one processing element will affect the other. The weights can be either positive or negative real...numbers. Where negative reals denote an inhibitory influence, positive reals, denote an excitatory in- fluence, and a value of zero, denotes no

  15. Instrumented Architectural Simulation System

    NASA Technical Reports Server (NTRS)

    Delagi, B. A.; Saraiya, N.; Nishimura, S.; Byrd, G.

    1987-01-01

    Simulation of systems at an architectural level can offer an effective way to study critical design choices if (1) the performance of the simulator is adequate to examine designs executing significant code bodies, not just toy problems or small application fragements, (2) the details of the simulation include the critical details of the design, (3) the view of the design presented by the simulator instrumentation leads to useful insights on the problems with the design, and (4) there is enough flexibility in the simulation system so that the asking of unplanned questions is not suppressed by the weight of the mechanics involved in making changes either in the design or its measurement. A simulation system with these goals is described together with the approach to its implementation. Its application to the study of a particular class of multiprocessor hardware system architectures is illustrated.

  16. An acpXL Mutant of Rhizobium leguminosarum bv. phaseoli Lacks 27-Hydroxyoctacosanoic Acid in Its Lipid A and Is Developmentally Delayed during Symbiotic Infection of the Determinate Nodulating Host Plant Phaseolus vulgaris ▿

    PubMed Central

    Brown, Dusty B.; Huang, Yu-Chu; Kannenberg, Elmar L.; Sherrier, D. Janine; Carlson, Russell W.

    2011-01-01

    Rhizobium leguminosarum is a Gram-negative bacterium that forms nitrogen-fixing symbioses with compatible leguminous plants via intracellular invasion and establishes a persistent infection within host membrane-derived subcellular compartments. Notably, an unusual very-long-chain fatty acid (VLCFA) is found in the lipid A of R. leguminosarum as well as in the lipid A of the medically relevant pathogens Brucella abortus, Brucella melitensis, Bartonella henselae, and Legionella pneumophila, which are also able to persist within intracellular host-derived membranes. These bacterial symbionts and pathogens each contain a homologous gene region necessary for the synthesis and transfer of the VLCFA to the lipid A. Within this region lies a gene that encodes the specialized acyl carrier protein AcpXL, on which the VLCFA is built. This study describes the biochemical and infection phenotypes of an acpXL mutant which lacks the VLCFA. The mutation was created in R. leguminosarum bv. phaseoli strain 8002, which forms symbiosis with Phaseolus vulgaris, a determinate nodulating legume. Structural analysis using gas chromatography and mass spectrometry revealed that the mutant lipid A lacked the VLCFA. Compared to the parent strain, the mutant was more sensitive to the detergents deoxycholate and dodecyl sulfate and the antimicrobial peptide polymyxin B, suggesting a compromise to membrane stability. In addition, the mutant was more sensitive to higher salt concentrations. Passage through the plant restored salt tolerance. Electron microscopic examination showed that the mutant was developmentally delayed during symbiotic infection of the host plant Phaseolus vulgaris and produced abnormal symbiosome structures. PMID:21764936

  17. Models for evaluating the performability of degradable computing systems

    NASA Technical Reports Server (NTRS)

    Wu, L. T.

    1982-01-01

    Recent advances in multiprocessor technology established the need for unified methods to evaluate computing systems performance and reliability. In response to this modeling need, a general modeling framework that permits the modeling, analysis and evaluation of degradable computing systems is considered. Within this framework, several user oriented performance variables are identified and shown to be proper generalizations of the traditional notions of system performance and reliability. Furthermore, a time varying version of the model is developed to generalize the traditional fault tree reliability evaluation methods of phased missions.

  18. Partitioning in parallel processing of production systems

    SciTech Connect

    Oflazer, K.

    1987-01-01

    This thesis presents research on certain issues related to parallel processing of production systems. It first presents a parallel production system interpreter that has been implemented on a four-processor multiprocessor. This parallel interpreter is based on Forgy's OPS5 interpreter and exploits production-level parallelism in production systems. Runs on the multiprocessor system indicate that it is possible to obtain speed-up of around 1.7 in the match computation for certain production systems when productions are split into three sets that are processed in parallel. The next issue addressed is that of partitioning a set of rules to processors in a parallel interpreter with production-level parallelism, and the extent of additional improvement in performance. The partitioning problem is formulated and an algorithm for approximate solutions is presented. The thesis next presents a parallel processing scheme for OPS5 production systems that allows some redundancy in the match computation. This redundancy enables the processing of a production to be divided into units of medium granularity each of which can be processed in parallel. Subsequently, a parallel processor architecture for implementing the parallel processing algorithm is presented.

  19. Monitors, messages, and clusters : the p4 parallel programming system.

    SciTech Connect

    Butler, R. M.; Lusk, E. T.; Mathematics and Computer Science; Univ. of North Florida

    1994-01-01

    p4 is a portable library of C and Fortran subroutines for programming parallel computers. It is the current version of a system that has been in use since 1984. It includes features for explicit parallel programming of shared-memory machines, distributed-memory machines (including heterogeneous networks of workstations), and clusters, by which we mean shared-memory multiprocessors communicating via message passing. We discuss here the design goals, history, and system architecture of p4 and describe briefly a diverse collection of applications that have demonstrated the utility of p4.

  20. The Galley Parallel File System

    NASA Technical Reports Server (NTRS)

    Nieuwejaar, Nils; Kotz, David

    1996-01-01

    As the I/O needs of parallel scientific applications increase, file systems for multiprocessors are being designed to provide applications with parallel access to multiple disks. Many parallel file systems present applications with a conventional Unix-like interface that allows the application to access multiple disks transparently. The interface conceals the parallelism within the file system, which increases the ease of programmability, but makes it difficult or impossible for sophisticated programmers and libraries to use knowledge about their I/O needs to exploit that parallelism. Furthermore, most current parallel file systems are optimized for a different workload than they are being asked to support. We introduce Galley, a new parallel file system that is intended to efficiently support realistic parallel workloads. We discuss Galley's file structure and application interface, as well as an application that has been implemented using that interface.

  1. Effect of acetate formation pathway and long chain fatty acid CoA-ligase on the free fatty acid production in E. coli expressing acy-ACP thioesterase from Ricinus communis.

    PubMed

    Li, Mai; Zhang, Xiujun; Agrawal, Arpita; San, Ka-Yiu

    2012-07-01

    Microbial biosynthesis of fatty acid like chemicals from renewable carbon sources has attracted significant attention in recent years. Free fatty acids can be used as precursors for the production of fuels or chemicals. Wild type E. coli strains produce fatty acids mainly for the biosynthesis of lipids and cell membranes and do not accumulate free fatty acids as intermediates in lipid biosynthesis. However, free fatty acids can be produced by breaking the fatty acid elongation through the overexpression of an acyl-ACP thioesterase. Since acetyl-CoA might be an important factor for fatty acid synthesis (acetate formation pathways are the main competitive pathways in consuming acetyl-CoA or pyruvate, a precursor of acetyl-CoA), and the long chain fatty acid CoA-ligase (FadD) plays a pivotal role in the transport and activation of exogenous fatty acids prior to their subsequent degradation, we examined the composition and the secretion of the free fatty acids in four different strains including the wild type MG1655, a mutant strain with inactivation of the fatty acid beta-oxidation pathway (fadD mutant (ML103)), and mutant strains with inactivation of the two major acetate production pathways (an ack-pta (acetate kinase/phosphotransacetylase), poxB (pyruvate oxidase) double mutant (ML112)) and a fadD, ack-pta, poxB triple mutant (ML115). The engineered E. coli cells expressing acyl-ACP thioesterase with glucose yield is higher than 40% of theoretical yield. Compared to MG1655(pXZ18) and ML103(pXZ18), acetate forming pathway deletion strains such as ML112(pXZ18) and ML115(pXZ18) produced similar quantity of total free fatty acids, which indicated that acetyl-CoA availability does not appear to be limiting factor for fatty acid production in these strains. However, these strains did show significant differences in the composition of free fatty acids. Different from MG1655(pXZ18) and ML103(pXZ18), acetate formation pathway deletion strains such as ML112(pXZ18) and ML115

  2. Scheduling parallel programs in distributed systems

    SciTech Connect

    Rommel, C.G.

    1988-01-01

    Scheduling parallel programs under the processor-sharing discipline for uniprocessors, multiprocessors, and distributed systems was studied. Two classes of parallel programs are considered: those without any IPC (called Fork-Join jobs) and those with asynchronous and uniform IPC (called clusters). The study is divided into two parts: (1) develops analytical solutions for Fork-Join Jobs on uniprocessors and multiprocessors; and (2) develops and evaluates via simulation Fork-Join jobs and clusters on distributed systems. The types of site scheduling studied are TS-PS where tasks of a job are scheduled independently at processor-sharing servers, JS-PS in which tasks of a job are scheduled as a single entity at processor-sharing servers, and FCFS where tasks of a job are scheduled independently by order of arrival. For Poisson job arrivals and exponentially distributed task service times, analytical solutions and computationally efficient bounds were found for Fork-Join TS-PS and JS-PS job response times. An algorithm was developed to schedule parallel programs in distributed systems. Over a wide range of parameters the algorithms was found to be superior to both no-load balancing, NLB, and shortest-queue first scheduling, SQF.

  3. The Automated Instrumentation and Monitoring System (AIMS) reference manual

    NASA Technical Reports Server (NTRS)

    Yan, Jerry; Hontalas, Philip; Listgarten, Sherry

    1993-01-01

    Whether a researcher is designing the 'next parallel programming paradigm,' another 'scalable multiprocessor' or investigating resource allocation algorithms for multiprocessors, a facility that enables parallel program execution to be captured and displayed is invaluable. Careful analysis of execution traces can help computer designers and software architects to uncover system behavior and to take advantage of specific application characteristics and hardware features. A software tool kit that facilitates performance evaluation of parallel applications on multiprocessors is described. The Automated Instrumentation and Monitoring System (AIMS) has four major software components: a source code instrumentor which automatically inserts active event recorders into the program's source code before compilation; a run time performance-monitoring library, which collects performance data; a trace file animation and analysis tool kit which reconstructs program execution from the trace file; and a trace post-processor which compensate for data collection overhead. Besides being used as prototype for developing new techniques for instrumenting, monitoring, and visualizing parallel program execution, AIMS is also being incorporated into the run-time environments of various hardware test beds to evaluate their impact on user productivity. Currently, AIMS instrumentors accept FORTRAN and C parallel programs written for Intel's NX operating system on the iPSC family of multi computers. A run-time performance-monitoring library for the iPSC/860 is included in this release. We plan to release monitors for other platforms (such as PVM and TMC's CM-5) in the near future. Performance data collected can be graphically displayed on workstations (e.g. Sun Sparc and SGI) supporting X-Windows (in particular, Xl IR5, Motif 1.1.3).

  4. Revisiting the cell biology of the acyl-ACP:phosphate transacylase PlsX suggests that the phospholipid synthesis and cell division machineries are not coupled in Bacillus subtilis.

    PubMed

    Sastre, Diego Emiliano; Bisson-Filho, Alexandre; de Mendoza, Diego; Gueiros-Filho, Frederico J

    2016-05-01

    PlsX is a central enzyme of phospholipid synthesis in bacteria, converting acyl-ACP to acyl-phosphate on the pathway to phosphatidic acid formation. PlsX has received attention because it plays a key role in the coordination of fatty acid and phospholipid synthesis. Recently, PlsX was also suggested to coordinate membrane synthesis with cell division in Bacillus subtilis. Here, we have re-investigated the cell biology of PlsX and determined that the enzyme is uniformly distributed on the membrane of most cells, but occasionally appears as membrane foci as well. Foci and homogenous patterns seem freely interconvertible but the prevalence of the uniform staining suggests that PlsX does not need to localize to specific sites to function correctly. We also investigated the relationship between PlsX and the divisome. In contrast to previous observations, PlsX's foci showed no obvious periodicity of localization and did not colocalize with the divisome. Furthermore, depletion of PlsX did not affect cell division if phospholipid synthesis is maintained by an alternative enzyme. These results suggest that coordination between division and membrane synthesis may not require physical or functional interactions between the divisome and phospholipid synthesis enzymes.

  5. Modulation of medium-chain fatty acid synthesis in Synechococcus sp. PCC 7002 by replacing FabH with a Chaetoceros Ketoacyl-ACP synthase

    SciTech Connect

    Gu, Huiya; Jinkerson, Robert E.; Davies, Fiona K.; Sisson, Lyle A.; Schneider, Philip E.; Posewitz, Matthew C.

    2016-05-26

    The isolation or engineering of algal cells synthesizing high levels of medium-chain fatty acids (MCFAs) is attractive to mitigate the high clouding point of longer chain fatty acids in algal based biodiesel. To develop a more informed understanding of MCFA synthesis in photosynthetic microorganisms, we isolated several algae from Great Salt Lake and screened this collection for MCFA accumulation to identify strains naturally accumulating high levels of MCFA. A diatom, Chaetoceros sp. GSL56, accumulated particularly high levels of C14 (up to 40%), with the majority of C14 fatty acids allocated in triacylglycerols. Using whole cell transcriptome sequencing and de novo assembly, putative genes encoding fatty acid synthesis enzymes were identified. Enzymes from this Chaetoceros sp. were expressed in the cyanobacterium Synechococcus sp. PCC 7002 to validate gene function and to determine whether eukaryotic enzymes putatively lacking bacterial evolutionary control mechanisms could be used to improve MCFA production in this promising production strain. Replacement of the Synechococcus 7002 native FabH with a Chaetoceros ketoacyl-ACP synthase Ill increased MCFA synthesis up to fivefold. In conclusion, the level of increase is dependent on promoter strength and culturing conditions.

  6. Data acquisition system for the Large Scintillating Neutrino Detector at Los Alamos

    SciTech Connect

    Anderson, G.; Cohen, I. ); Homann, B.; Smith, D. ); Strossman, W.; VanDalen, G.J. ); Weaver, L.S.; Evans, D.; Vernon, W. ); Band, A.; Burman, R.; Chang, T.; Federspiel, F.; Foreman, W.; Gomulka, S.; H

    1992-01-01

    The data acquisition system for the Large Scintillating Neutrino Detector (LSND) is described. The system collects time and charge information in real time from 1600 photomultiplier tubes and passes the data in intelligent-trigger selected time windows to analysis computers, where events are reconstructed and analyzed as candidates for a variety of neutrino-related physics processes. The system is composed of fourteen VME crates linked to a Silicon Graphics, Inc. 4D/480'' multiprocessor computer through multiple, parallel Ethernets, and a collection of contemporary high-performance workstations.

  7. Data acquisition system for the Large Scintillating Neutrino Detector at Los Alamos

    SciTech Connect

    Anderson, G.; Cohen, I.; Homann, B.; Smith, D.; Strossman, W.; VanDalen, G.J.; Weaver, L.S.; Evans, D.; Vernon, W.; Band, A.; Burman, R.; Chang, T.; Federspiel, F.; Foreman, W.; Gomulka, S.; Hart, G.; Kozlowski, T.; Louis, W.C.; Margulies, J.; Nuanes, A.; Sandberg, V.; Thompson, T.N.; White, D.H.; Whitehouse, D.

    1992-10-01

    The data acquisition system for the Large Scintillating Neutrino Detector (LSND) is described. The system collects time and charge information in real time from 1600 photomultiplier tubes and passes the data in intelligent-trigger selected time windows to analysis computers, where events are reconstructed and analyzed as candidates for a variety of neutrino-related physics processes. The system is composed of fourteen VME crates linked to a Silicon Graphics, Inc. ``4D/480`` multiprocessor computer through multiple, parallel Ethernets, and a collection of contemporary high-performance workstations.

  8. Alpha: A real-time decentralized operating system for mission-oriented system integration and operation

    NASA Technical Reports Server (NTRS)

    Jensen, E. Douglas

    1988-01-01

    Alpha is a new kind of operating system that is unique in two highly significant ways. First, it is decentralized transparently providing reliable resource management across physically dispersed nodes, so that distributed applications programming can be done largely as though it were centralized. And second, it provides comprehensive, high technology support for real-time system integration and operation, an application area which consists predominately of aperiodic activities having critical time constraints such as deadlines. Alpha is extremely adaptable so that it can be easily optimized for a wide range of problem-specific functionality, performance, and cost. Alpha is the first systems effort of the Archons Project, and the prototype was created at Carnegie-Mellon University directly on modified Sun multiprocessor workstation hardware. It has been demonstrated with a real-time C(sup 2) application. Continuing research is leading to a series of enhanced follow-ons to Alpha; these are portable but initially hosted on Concurrent's MASSCOMP line of multiprocessor products.

  9. Evaluating Thermodynamic Integration Performance of the New Amber Molecular Dynamics Package and Assess Potential Halogen Bonds of Enoyl-ACP Reductase (FabI) Benzimidazole Inhibitors

    PubMed Central

    Su, Pin-Chih; Johnson, Michael E.

    2015-01-01

    Thermodynamic integration (TI) can provide accurate binding free energy insights in a lead optimization program, but its high computational expense has limited its usage. In the effort of developing an efficient and accurate TI protocol for FabI inhibitors lead optimization program, we carefully compared TI with different Amber molecular dynamics (MD) engines (sander and pmemd), MD simulation lengths, the number of intermediate states and transformation steps, and the Lennard-Jones and Coulomb Softcore potentials parameters in the one-step TI, using eleven benzimidazole inhibitors in complex with Francisella tularensis enoyl acyl reductase (FtFabI). To our knowledge, this is the first study to extensively test the new AMBER MD engine, pmemd, on TI and compare the parameters of the Softcore potentials in the one-step TI in a protein-ligand binding system. The best performing model, the one-step pmemd TI, using 6 intermediate states and 1 ns MD simulations, provides better agreement with experimental results (RMSD = 0.52 kcal/mol) than the best performing implicit solvent method, QM/MM-GBSA from our previous study (RMSD = 3.00 kcal/mol), while maintaining similar efficiency. Briefly, we show the optimized TI protocol to be highly accurate and affordable for the FtFabI system. This approach can be implemented in a larger scale benzimidazole scaffold lead optimization against FtFabI. Lastly, the TI results here also provide structure-activity relationship insights, and suggest the para-halogen in benzimidazole compounds might form a weak halogen bond with FabI, which is a well-known halogen bond favoring enzyme. PMID:26666582

  10. Evaluating thermodynamic integration performance of the new amber molecular dynamics package and assess potential halogen bonds of enoyl-ACP reductase (FabI) benzimidazole inhibitors.

    PubMed

    Su, Pin-Chih; Johnson, Michael E

    2016-04-05

    Thermodynamic integration (TI) can provide accurate binding free energy insights in a lead optimization program, but its high computational expense has limited its usage. In the effort of developing an efficient and accurate TI protocol for FabI inhibitors lead optimization program, we carefully compared TI with different Amber molecular dynamics (MD) engines (sander and pmemd), MD simulation lengths, the number of intermediate states and transformation steps, and the Lennard-Jones and Coulomb Softcore potentials parameters in the one-step TI, using eleven benzimidazole inhibitors in complex with Francisella tularensis enoyl acyl reductase (FtFabI). To our knowledge, this is the first study to extensively test the new AMBER MD engine, pmemd, on TI and compare the parameters of the Softcore potentials in the one-step TI in a protein-ligand binding system. The best performing model, the one-step pmemd TI, using 6 intermediate states and 1 ns MD simulations, provides better agreement with experimental results (RMSD = 0.52 kcal/mol) than the best performing implicit solvent method, QM/MM-GBSA from our previous study (RMSD = 3.00 kcal/mol), while maintaining similar efficiency. Briefly, we show the optimized TI protocol to be highly accurate and affordable for the FtFabI system. This approach can be implemented in a larger scale benzimidazole scaffold lead optimization against FtFabI. Lastly, the TI results here also provide structure-activity relationship insights, and suggest the parahalogen in benzimidazole compounds might form a weak halogen bond with FabI, which is a well-known halogen bond favoring enzyme.

  11. TOPOLOGY FOR A DSP BASED BEAM CONTROL SYSTEM IN THE AGS BOOSTER.

    SciTech Connect

    DELONG,J.BRENNAN,J.M.HAYES,T.LE,T.N.SMITH,K.

    2003-05-12

    The AGS Booster supports beams of ions and protons with a wide range of energies on a pulse-by-pulse modulation basis. This requires an agile beam control system highly integrated with its controls. To implement this system digital techniques in the form of Digital Signal Processors, Direct Digital Synthesizers, digital receivers and high speed Analog to Digital Converters are used. Signals from the beam and cavity pick-ups, as well as measurements of magnetic field strength in the ring dipoles are processed in real time. To facilitate this a multi-processor topology with high bandwidth data links is being designed.

  12. A new taxonomy for distributed computer systems based upon operating system structure

    NASA Technical Reports Server (NTRS)

    Foudriat, E. C.

    1985-01-01

    Characteristics of the resource structure found in the operating system are considered as a mechanism for classifying distributed computer systems. Since the operating system resources, themselves, are too diversified to provide a consistent classification, the structure upon which resources are built and shared are examined. The location and control character of this indivisibility provides the taxonomy for separating uniprocessors, computer networks, network computers (fully distributed processing systems or decentralized computers) and algorithm and/or data control multiprocessors. The taxonomy is important because it divides machines into a classification that is relevant or important to the client and not the hardware architect. It also defines the character of the kernel O/S structure needed for future computer systems. What constitutes an operating system for a fully distributed processor is discussed in detail.

  13. Biparametric multicommutated flow analysis system for determination of human serum phosphoesterase activity.

    PubMed

    Tymecki, Łukasz; Strzelak, Kamil; Koncki, Robert

    2013-10-03

    A multicommutated flow analysis (MCFA) system constructed of microsolenoid valves and pumps offering simultaneous determination of activity of acid phosphatase (ACP) and alkaline phosphatase (ALP) in human serum samples has been developed. The MCFA system is based on optoelectronic flow-through detector made of two light emitting diodes and operating according to paired emitter detector diode (PEDD) principle. This photometric PEDD device has been dedicated for detection of p-nitrophenol (NP) generated in the course of enzymatic hydrolysis of p-nitrophenyl phosphate and optimized for the determination of NP in human serum samples. The developed PEDD-based MCFA system allows independent optimization of conditions for reaction and detection steps of photometric ACP and ALP bioassays. Moreover, it allows elimination of photometric interferences from serum matrix components according to two-points kinetic mode of measurement. The single measurement cycle takes 12 min, consists of four measurements (two for each phosphoesterase) and enables determination of serum ACP and ALP activities at physiological and pathological levels. The real analytical utility of the developed MCFA system has been confirmed by analysis of control sera as well as real human serum samples from healthy persons and oncological patients.

  14. Using memory in the Cedar system

    SciTech Connect

    McGrath, R.E.; Emrath, P.

    1987-01-01

    The design of the virtual memory system for the Cedar multiprocessor under construction at the University of Illinois is discussed. The Cedar architecture features a hierarchy of memory, some shared by all processors, and some shared by subsets of processors. The Xylem operating system is based on Alliant Computer Systems CONCENTRIX(TM) operating system, which is based on 4.2BSD UNIX(TM). Xylem supports multi-tasking and demand paging of parts of the memory hierarchy into a linear virtual address space. Memory may be private to a task or shared between all the tasks. The locality and attributes of a page may be modified during the execution of a program. Examples of how these mechanisms can be used are discussed. 14 figs.

  15. On the ∆ACP saga

    NASA Astrophysics Data System (ADS)

    Santorelli, Pietro

    2014-11-01

    We discuss a model in which the large SU(3) flavor violations in singly Cabibbo suppressed decays of neutral D mesons are ascribed exclusively to the final state interactions. The agreement with the experimental data on the branching ratios is obtained with large strong phase differences which are also necessary for substantial direct CP violation. While the value of the CP violating asymmetries depends on the strength of the penguin contribution, we predict an asymmetry for the decays into charged pions more than twice larger than that for charged kaons and having opposite sign.

  16. ETHERNET BASED EMBEDDED IOC FOR FEL CONTROL SYSTEM

    SciTech Connect

    Jianxun Yan; Daniel Sexton; Albert Grippo; Steven Moore; Kevin Jordan

    2008-01-23

    An Ethernet based embedded Input Output Controller (IOC) has been developed to upgrade the control system for the Free Electron Laser Project at Jefferson Lab. The embedded IOC, called the Single Board IOC (SBIOC), was integrated with a ColdFire embedded microprocessor and a Field Programmable Gate Array (FPGA) on a circuit board, which can be easily configured to control different kinds of I/O devices. The SBIOC provided features of a complete System-on-Module (SOM) as a stand alone system with abundant high speed I/O ports to couple with suitable devices. The software kits, Experimental Physics and Industrial Control System (EPICS) and Real Time Executive for Multiprocessor System (RTEMS), were chosen to work with our existing control system. The embedded IOC system has the features of a low cost IOC, free open source RTOS, plug-and-play-like ease of installation and flexibility.

  17. RTEMS CENTRE - Support and Maintenance CENTRE to RTEMS Operating System

    NASA Astrophysics Data System (ADS)

    Silva, H.; Constantino, A.; Mota, M.; Freitas, D.; Zulianello, M.

    2007-08-01

    Real Time Operating System for Multiprocessor Systems (RTEMS) CENTRE is a project under the ESA-Portugal Task Force aiming to develop a support and maintenance centre to RTEMS operating system. The project can be summarized in two main streams, first one related to design, development, maintenance and integration of tools to augment and sustain RTEMS operating system and second stream linked to the creation of technical competences with a support site to RTEMS operating system in Europe. RTEMS CENTRE intends to minimize the cost of the incorporation/integration of airborne and space applications in this Real Time Operating System. The centre started officially in the 15th of November 2006 and is currently in the study definition and system engineering phase.

  18. The missing piece of the type II fatty acid synthase system from Mycobacterium tuberculosis

    PubMed Central

    Sacco, Emmanuelle; Covarrubias, Adrian Suarez; O'Hare, Helen M.; Carroll, Paul; Eynard, Nathalie; Jones, T. Alwyn; Parish, Tanya; Daffé, Mamadou; Bäckbro, Kristina; Quémard, Annaïk

    2007-01-01

    The Mycobacterium tuberculosis fatty acid synthase type II (FAS-II) system has the unique property of producing unusually long-chain fatty acids involved in the biosynthesis of mycolic acids, key molecules of the tubercle bacillus. The enzyme(s) responsible for dehydration of (3R)-hydroxyacyl-ACP during the elongation cycles of the mycobacterial FAS-II remained unknown. This step is classically catalyzed by FabZ- and FabA-type enzymes in bacteria, but no such proteins are present in mycobacteria. Bioinformatic analyses and an essentiality study allowed the identification of a candidate protein cluster, Rv0635-Rv0636-Rv0637. Its expression in recombinant Escherichia coli strains leads to the formation of two heterodimers, Rv0635-Rv0636 (HadAB) and Rv0636-Rv0637 (HadBC), which also occurs in Mycobacterium smegmatis, as shown by split-Trp assays. Both heterodimers exhibit the enzymatic properties expected for mycobacterial FAS-II dehydratases: a marked specificity for both long-chain (≥C12) and ACP-linked substrates. Furthermore, they function as 3-hydroxyacyl dehydratases when coupled with MabA and InhA enzymes from the M. tuberculosis FAS-II system. HadAB and HadBC are the long-sought (3R)-hydroxyacyl-ACP dehydratases. The correlation between the substrate specificities of these enzymes, the organization of the orthologous gene cluster in different Corynebacterineae, and the structure of their mycolic acids suggests distinct roles for both heterodimers during the elongation process. This work describes bacterial monofunctional (3R)-hydroxyacyl-ACP dehydratases belonging to the hydratase 2 family. Their original structure and the fact that they are essential for M. tuberculosis survival make these enzymes very good candidates for the development of antimycobacterial drugs. PMID:17804795

  19. Scalable Triadic Analysis of Large-Scale Graphs: Multi-Core vs. Multi-Processor vs. Multi-Threaded Shared Memory Architectures

    SciTech Connect

    Chin, George; Marquez, Andres; Choudhury, Sutanay; Feo, John T.

    2012-09-01

    Triadic analysis encompasses a useful set of graph mining methods that is centered on the concept of a triad, which is a subgraph of three nodes and the configuration of directed edges across the nodes. Such methods are often applied in the social sciences as well as many other diverse fields. Triadic methods commonly operate on a triad census that counts the number of triads of every possible edge configuration in a graph. Like other graph algorithms, triadic census algorithms do not scale well when graphs reach tens of millions to billions of nodes. To enable the triadic analysis of large-scale graphs, we developed and optimized a triad census algorithm to efficiently execute on shared memory architectures. We will retrace the development and evolution of a parallel triad census algorithm. Over the course of several versions, we continually adapted the code’s data structures and program logic to expose more opportunities to exploit parallelism on shared memory that would translate into improved computational performance. We will recall the critical steps and modifications that occurred during code development and optimization. Furthermore, we will compare the performances of triad census algorithm versions on three specific systems: Cray XMT, HP Superdome, and AMD multi-core NUMA machine. These three systems have shared memory architectures but with markedly different hardware capabilities to manage parallelism.

  20. Parallelism in the execution of a routine-knowledge rule system on the BUTTERFLY (trademark) computer. Technical report

    SciTech Connect

    Boulanger, A.

    1986-12-01

    This project ported a routine-knowledge rule system to the BUTTERFLY multiprocessor. The goal was to explore parallelization techniques with an existing rule system originally written for serial execution. The rule system was rewritten to introduce parallelism, and run on a single processor to establish a benchmark for serial operation. The same version, with parallelism enabled, was then run on a 16-node BUTTERFLY multiprocessor. The metering tools on the BUTTERFLY were used to display task behavior and processor utilization. The information gained from these displays was used to guide further experimentation with the granularity of the rules and with the system code to investigate bottlenecks that were lengthening execution time. The project demonstrated that parallelization of routine-knowledge rule systems can yield substantial speedup. It also demonstrated that the metering tools on the BUTTERFLY can be used to achieve additional speedup of parallel implementations. The implications of this research are discussed and compared to the findings of research at Carnegie-Mellon University on parallelizing production systems.

  1. Thriving on Chaos: The Development of a Surgical Information System

    PubMed Central

    Olund, Steven R.

    1988-01-01

    Hospitals present unique challenges to the computer industry, generating a greater quantity and variety of data than nearly any other enterprise. This is complicated by the fact that a hospital is not one homogenous organization, but a bundle of semi-independent groups with unique data requirements. Therefore hospital information systems must be fast, flexible, reliable, easy to use and maintain, and cost-effective. The Surgical Information System at Rush Presbyterian-St. Luke's Medical Center, Chicago is such system. It uses a Sequent Balance 21000 multi-processor superminicomputer, running industry standard tools such as the Unix operating system, a 4th generation programming language (4GL), and Structured Query Language (SQL) relational database management software. This treatise illustrates a comprehensive yet generic approach which can be applied to almost any clinical situation where access to patient data is required by a variety of medical professionals.

  2. Real-time control open systems of five DOF nanomanipulators

    NASA Astrophysics Data System (ADS)

    Vladareanu, Luige; Vasile, Alexandru

    2010-11-01

    The main paper presents studies and research concerning the development of new open architectures for real-time control of a 5 degrees of freedom platform with 4 nano-manipulators, based on multiprocessor systems operating in a cooperation regime in order to achieve experiments in the 4 research domains: robotics, vibro-acustica, tribology, carbon nano tubes (CNTs ). In order to obtain this performance a positioning method with high precision at high speed is developed through reducing and compensating the induced dynamic vibrations by the system movement using the inverse dynamics method. The system's performance will allow the introduction of new functions without significant change to the hardware system. Through determining the optimal trajectory using a quadratic cost function for reducing tracking errors results increased motion speed and micro or nanometric positioning precision.

  3. Critical Path-Based Thread Placement for NUMA Systems

    SciTech Connect

    Su, C Y; Li, D; Nikolopoulos, D S; Grove, M; Cameron, K; de Supinski, B R

    2011-11-01

    Multicore multiprocessors use a Non Uniform Memory Architecture (NUMA) to improve their scalability. However, NUMA introduces performance penalties due to remote memory accesses. Without efficiently managing data layout and thread mapping to cores, scientific applications, even if they are optimized for NUMA, may suffer performance loss. In this paper, we present algorithms and a runtime system that optimize the execution of OpenMP applications on NUMA architectures. By collecting information from hardware counters, the runtime system directs thread placement and reduces performance penalties by minimizing the critical path of OpenMP parallel regions. The runtime system uses a scalable algorithm that derives placement decisions with negligible overhead. We evaluate our algorithms and runtime system with four NPB applications implemented in OpenMP. On average the algorithms achieve between 8.13% and 25.68% performance improvement compared to the default Linux thread placement scheme. The algorithms miss the optimal thread placement in only 8.9% of the cases.

  4. Investigation of an advanced fault tolerant integrated avionics system

    NASA Technical Reports Server (NTRS)

    Dunn, W. R.; Cottrell, D.; Flanders, J.; Javornik, A.; Rusovick, M.

    1986-01-01

    Presented is an advanced, fault-tolerant multiprocessor avionics architecture as could be employed in an advanced rotorcraft such as LHX. The processor structure is designed to interface with existing digital avionics systems and concepts including the Army Digital Avionics System (ADAS) cockpit/display system, navaid and communications suites, integrated sensing suite, and the Advanced Digital Optical Control System (ADOCS). The report defines mission, maintenance and safety-of-flight reliability goals as might be expected for an operational LHX aircraft. Based on use of a modular, compact (16-bit) microprocessor card family, results of a preliminary study examining simplex, dual and standby-sparing architectures is presented. Given the stated constraints, it is shown that the dual architecture is best suited to meet reliability goals with minimum hardware and software overhead. The report presents hardware and software design considerations for realizing the architecture including redundancy management requirements and techniques as well as verification and validation needs and methods.

  5. Design and initial application of the extended aircraft interrogation and display system: Multiprocessing ground support equipment for digital flight systems

    NASA Technical Reports Server (NTRS)

    Glover, Richard D.

    1987-01-01

    A pipelined, multiprocessor, general-purpose ground support equipment for digital flight systems has been developed and placed in service at the NASA Ames Research Center's Dryden Flight Research Facility. The design is an outgrowth of the earlier aircraft interrogation and display system (AIDS) used in support of several research projects to provide engineering-units display of internal control system parameters during development and qualification testing activities. The new system, incorporating multiple 16-bit processors, is called extended AIDS (XAIDS) and is now supporting the X-29A forward-swept-wing aircraft project. This report describes the design and mechanization of XAIDS and shows the steps whereby a typical user may take advantage of its high throughput and flexible features.

  6. Translation of a solution-based biomineralization concept into a carrier-based delivery system via the use of expanded-pore mesoporous silica

    PubMed Central

    Niu, Li-na; Mao, Jing; Huang, Cui; Pashley, David H.; Tay, Franklin R.

    2016-01-01

    Mineralization of collagen fibrils using solution-based systems containing biomimetic analogs of matrix proteins to stabilize supersaturated calcium phosphate solutions have been predictably achieved in-vitro. Solution-based systems have limitations when used for in-situ remineralization of human hypomineralized tissues because periodic replenishment of the mineralizing solution is infeasible. A carrier-based platform designed for delivering mineral precursors would be highly desirable. In the present work, mesoporous silica nanoparticles with expanded pores (eMSN; 14.8 nm) were synthesized. Polyacrylic acid-stabilized amorphous calcium phosphate (PA-ACP) was generated from a supersaturated calcium and phosphate ion-containing solution, and chosen as the model mineralizing phase. After amine functionalization (AF) of the eMSN through a post-grafting method, the positively-charged AF-eMSN enabled loading of PA-ACP by electrostatic interaction. In-vitro cytotoxicity testing indicated that PA-ACP@AF-eMSN was highly biocompatible. The release kinetics of mineralization precursors from PA-ACP@AF-eMSN was characterized by an initial period of rapid calcium and phosphate release that reached a plateau after 120 hr. Intrafibrillar mineralization was examined using a 2-D fibrillar collagen model; successful mineralization was confirmed using transmission electron microscopy. To date, this is the first endeavor that employs expanded-pore mesoporous silica to deliver polymer-stabilized intermediate precursors of calcium phosphate for intrafibrillar mineralization of collagen. The carrier-based delivery system bridges the gap between contemporary solution-based biomineralization concepts and clinical practice, and is useful for in-situ remineralization of bone and teeth. PMID:26657191

  7. Low Latency Messages on Distributed Memory Multiprocessors

    DOE PAGES

    Rosing, Matt; Saltz, Joel

    1995-01-01

    This article describes many of the issues in developing an efficient interface for communication on distributed memory machines. Although the hardware component of message latency is less than 1 ws on many distributed memory machines, the software latency associated with sending and receiving typed messages is on the order of 50 μs. The reason for this imbalance is that the software interface does not match the hardware. By changing the interface to match the hardware more closely, applications with fine grained communication can be put on these machines. This article describes several tests performed and many of the issues involvedmore » in supporting low latency messages on distributed memory machines.« less

  8. MASC: Multiprocessor Architecture for Symbolic Processing

    DTIC Science & Technology

    1989-08-01

    OFFICE SYMBOL 7a. NAME OF MONITORING ORGANIZATION UNISYS Paoli Research Center 0Rome Air Development Center (COTC) 6r- ADDRESS (Cty, State , and ZIP...Code) 7b. ADORESS (City, State , and ZIP Cod*) P.O. Box 517 Griffiss AFB NY 13441-5700 Paoli PA 19301 B& NAME OF FUNDING/SPONSORING Ib. OFFICE SYMBOL 9...PROCUREMENT INSTRUMENT IDENTIFICATION NUMBER N Defense Advanced of F30602-86-C-0093 Research Proiects Agency ISTO fc. ADORESS(Cy, Staft, and Z Codle

  9. Optimal cube-connected cube multiprocessors

    NASA Technical Reports Server (NTRS)

    Sun, Xian-He; Wu, Jie

    1993-01-01

    Many CFD (computational fluid dynamics) and other scientific applications can be partitioned into subproblems. However, in general the partitioned subproblems are very large. They demand high performance computing power themselves, and the solutions of the subproblems have to be combined at each time step. The cube-connect cube (CCCube) architecture is studied. The CCCube architecture is an extended hypercube structure with each node represented as a cube. It requires fewer physical links between nodes than the hypercube, and provides the same communication support as the hypercube does on many applications. The reduced physical links can be used to enhance the bandwidth of the remaining links and, therefore, enhance the overall performance. The concept and the method to obtain optimal CCCubes, which are the CCCubes with a minimum number of links under a given total number of nodes, are proposed. The superiority of optimal CCCubes over standard hypercubes was also shown in terms of the link usage in the embedding of a binomial tree. A useful computation structure based on a semi-binomial tree for divide-and-conquer type of parallel algorithms was identified. It was shown that this structure can be implemented in optimal CCCubes without performance degradation compared with regular hypercubes. The result presented should provide a useful approach to design of scientific parallel computers.

  10. Two-stage polling system with multiple servers

    NASA Astrophysics Data System (ADS)

    Lai, Wai Sum; Houck, David J.; Fuhrmann, Steven W.

    1997-10-01

    We investigate the impact of scheduling policies on the tail distribution of sojourn times experienced by various unevenly-loaded queues in a two-stage polling system served by a symmetric multiprocessor system running under a Unix- like operating system. The queues are statically divided into groups, with each group being managed by a process. A process can run on any of the available processors. Service to a customer is thus scheduled first at the process level and then at the queue level. Assuming that all customers have the same service requirement, and for Poisson arrivals and exponentially distributed service times and setup times, it is shown by simulation that the earliest-customer policy outperforms both 1-limited and exhaustive policies in the sense of providing equitable service to the queues.

  11. Problems related to the integration of fault tolerant aircraft electronic systems

    NASA Technical Reports Server (NTRS)

    Bannister, J. A.; Adlakha, V.; Triyedi, K.; Alspaugh, T. A., Jr.

    1982-01-01

    Problems related to the design of the hardware for an integrated aircraft electronic system are considered. Taxonomies of concurrent systems are reviewed and a new taxonomy is proposed. An informal methodology intended to identify feasible regions of the taxonomic design space is described. Specific tools are recommended for use in the methodology. Based on the methodology, a preliminary strawman integrated fault tolerant aircraft electronic system is proposed. Next, problems related to the programming and control of inegrated aircraft electronic systems are discussed. Issues of system resource management, including the scheduling and allocation of real time periodic tasks in a multiprocessor environment, are treated in detail. The role of software design in integrated fault tolerant aircraft electronic systems is discussed. Conclusions and recommendations for further work are included.

  12. Parallel processing and expert systems

    NASA Technical Reports Server (NTRS)

    Yan, Jerry C.; Lau, Sonie

    1991-01-01

    Whether it be monitoring the thermal subsystem of Space Station Freedom, or controlling the navigation of the autonomous rover on Mars, NASA missions in the 90's cannot enjoy an increased level of autonomy without the efficient use of expert systems. Merely increasing the computational speed of uniprocessors may not be able to guarantee that real time demands are met for large expert systems. Speed-up via parallel processing must be pursued alongside the optimization of sequential implementations. Prototypes of parallel expert systems have been built at universities and industrial labs in the U.S. and Japan. The state-of-the-art research in progress related to parallel execution of expert systems was surveyed. The survey is divided into three major sections: (1) multiprocessors for parallel expert systems; (2) parallel languages for symbolic computations; and (3) measurements of parallelism of expert system. Results to date indicate that the parallelism achieved for these systems is small. In order to obtain greater speed-ups, data parallelism and application parallelism must be exploited.

  13. Solving tridiagonal linear systems on the Butterfly parallel computer

    SciTech Connect

    Kumar, S.P.

    1989-01-01

    A parallel block partitioning method to solve a tri-diagonal system of linear equations is adapted to the BBN Butterfly multiprocessor. A performance analysis of the programming experiments on the 32-node Butterfly is presented. An upper bound on the number of processors to achieve the best performance with this method is derived. The computational results verify the theoretical speedup and efficiency results of the parallel algorithm over its serial counterpart. Also included is a study comparing performance runs of the same code on the Butterfly processor with a hardware floating point unit and on one with a software floating point facility. The total parallel time of the given code is considerably reduced by making use of the hardware floating point facility whereas the speedup and efficiency of the parallel program considerably improve on the system with software floating point capability. The achieved results are shown to be within 82% to 90% of the predicted performance.

  14. Analysis and design of algorithm-based fault-tolerant systems

    NASA Technical Reports Server (NTRS)

    Nair, V. S. Sukumaran

    1990-01-01

    An important consideration in the design of high performance multiprocessor systems is to ensure the correctness of the results computed in the presence of transient and intermittent failures. Concurrent error detection and correction have been applied to such systems in order to achieve reliability. Algorithm Based Fault Tolerance (ABFT) was suggested as a cost-effective concurrent error detection scheme. The research was motivated by the complexity involved in the analysis and design of ABFT systems. To that end, a matrix-based model was developed and, based on that, algorithms for both the design and analysis of ABFT systems are formulated. These algorithms are less complex than the existing ones. In order to reduce the complexity further, a hierarchical approach is developed for the analysis of large systems.

  15. Performance Monitoring of Distributed Data Processing Systems

    NASA Technical Reports Server (NTRS)

    Ojha, Anand K.

    2000-01-01

    Test and checkout systems are essential components in ensuring safety and reliability of aircraft and related systems for space missions. A variety of systems, developed over several years, are in use at the NASA/KSC. Many of these systems are configured as distributed data processing systems with the functionality spread over several multiprocessor nodes interconnected through networks. To be cost-effective, a system should take the least amount of resource and perform a given testing task in the least amount of time. There are two aspects of performance evaluation: monitoring and benchmarking. While monitoring is valuable to system administrators in operating and maintaining, benchmarking is important in designing and upgrading computer-based systems. These two aspects of performance evaluation are the foci of this project. This paper first discusses various issues related to software, hardware, and hybrid performance monitoring as applicable to distributed systems, and specifically to the TCMS (Test Control and Monitoring System). Next, a comparison of several probing instructions are made to show that the hybrid monitoring technique developed by the NIST (National Institutes for Standards and Technology) is the least intrusive and takes only one-fourth of the time taken by software monitoring probes. In the rest of the paper, issues related to benchmarking a distributed system have been discussed and finally a prescription for developing a micro-benchmark for the TCMS has been provided.

  16. Proceedings of the 1985 winter simulation conference

    SciTech Connect

    Gantz, D.T.; Blais, G.C.; Solomon, S.L.

    1985-01-01

    This book presents the papers given at a conference which considered supercomputers and multiprocessors. Topics covered at the conference included artificial intelligence, fuzzy logic in simulation, gaming and simulation, improving a multistage/multiprocessor flow-shop problem of numerous technological constraints through scheduling, the general simulation of multiprocessor interconnection networks, the simulation of a pyramid computer, and alternate structures for public power systems.

  17. Information management system breadboard data acquisition and control system.

    NASA Technical Reports Server (NTRS)

    Mallary, W. E.

    1972-01-01

    Description of a breadboard configuration of an advanced information management system based on requirements for high data rates and local and centralized computation for subsystems and experiments to be housed on a space station. The system is to contain a 10-megabit-per-second digital data bus, remote terminals with preprocessor capabilities, and a central multiprocessor. A concept definition is presented for the data acquisition and control system breadboard, and a detailed account is given of the operation of the bus control unit, the bus itself, and the remote acquisition and control unit. The data bus control unit is capable of operating under control of both its own test panel and the test processor. In either mode it is capable of both single- and multiple-message operation in that it can accept a block of data requests or update commands for transmission to the remote acquisition and control unit, which in turn is capable of three levels of data-handling complexity.

  18. Design of high-speed data collecting system for pipeline magnetic flux leakage inspection

    NASA Astrophysics Data System (ADS)

    Qu, Weidong; Xu, Hongbing

    2013-03-01

    In the process of high-speed magnetic flux leakage inspection, a large amount of signals containing pipeline status, characteristics and defects need to be collected and transmitted. High sampling frequency, high real-time, high precision and intellectualization for data collecting are long-term trend. This paper proposed a new design method of high speed data collecting system. In the system, dual CPU structure is applied in main controller and the high-speed communication between DSP and MCU is realized through dual-port RAM technology. With the Dual CPU structure being applied, the measurement, control and the communication are charged by two CPUs respectively, which can improve the system adaptability. Dual-port RAM can raise communication efficiency by improving the parallel processing ability among different type of multiprocessors.

  19. Research on computer systems benchmarking

    NASA Technical Reports Server (NTRS)

    Smith, Alan Jay (Principal Investigator)

    1996-01-01

    This grant addresses the topic of research on computer systems benchmarking and is more generally concerned with performance issues in computer systems. This report reviews work in those areas during the period of NASA support under this grant. The bulk of the work performed concerned benchmarking and analysis of CPUs, compilers, caches, and benchmark programs. The first part of this work concerned the issue of benchmark performance prediction. A new approach to benchmarking and machine characterization was reported, using a machine characterizer that measures the performance of a given system in terms of a Fortran abstract machine. Another report focused on analyzing compiler performance. The performance impact of optimization in the context of our methodology for CPU performance characterization was based on the abstract machine model. Benchmark programs are analyzed in another paper. A machine-independent model of program execution was developed to characterize both machine performance and program execution. By merging these machine and program characterizations, execution time can be estimated for arbitrary machine/program combinations. The work was continued into the domain of parallel and vector machines, including the issue of caches in vector processors and multiprocessors. All of the afore-mentioned accomplishments are more specifically summarized in this report, as well as those smaller in magnitude supported by this grant.

  20. Development of a model of machine hand eye coordination and program specifications for a topological machine vision system

    NASA Technical Reports Server (NTRS)

    1972-01-01

    A unified approach to computer vision and manipulation is developed which is called choreographic vision. In the model, objects to be viewed by a projected robot in the Viking missions to Mars are seen as objects to be manipulated within choreographic contexts controlled by a multimoded remote, supervisory control system on Earth. A new theory of context relations is introduced as a basis for choreographic programming languages. A topological vision model is developed for recognizing objects by shape and contour. This model is integrated with a projected vision system consisting of a multiaperture image dissector TV camera and a ranging laser system. System program specifications integrate eye-hand coordination and topological vision functions and an aerospace multiprocessor implementation is described.

  1. Using a scalable modeling and simulation framework to evaluate the benefits of intelligent transportation systems.

    SciTech Connect

    Ewing, T.; Tentner, A.

    2000-03-21

    A scalable, distributed modeling and simulation framework has been developed at Argonne National Laboratory to study Intelligent Transportation Systems. The framework can run on a single-processor workstation, or run distributed on a multiprocessor computer or network of workstations. The framework is modular and supports plug-in models, hardware, and live data sources. The initial set of models currently includes road network and traffic flow, probe and smart vehicles, traffic management centers, communications between vehicles and centers, in-vehicle navigation systems, roadway traffic advisories. The modeling and simulation capability has been used to examine proposed ITS concepts. Results are presented from modeling scenarios from the Advanced Driver and Vehicle Advisory Navigation Concept (ADVANCE) experimental program to demonstrate how the framework can be used to evaluate the benefits of ITS and to plan future ITS operational tests and deployment initiatives.

  2. An Efficient Solution Method for Multibody Systems with Loops Using Multiple Processors

    NASA Technical Reports Server (NTRS)

    Ghosh, Tushar K.; Nguyen, Luong A.; Quiocho, Leslie J.

    2015-01-01

    This paper describes a multibody dynamics algorithm formulated for parallel implementation on multiprocessor computing platforms using the divide-and-conquer approach. The system of interest is a general topology of rigid and elastic articulated bodies with or without loops. The algorithm divides the multibody system into a number of smaller sets of bodies in chain or tree structures, called "branches" at convenient joints called "connection points", and uses an Order-N (O (N)) approach to formulate the dynamics of each branch in terms of the unknown spatial connection forces. The equations of motion for the branches, leaving the connection forces as unknowns, are implemented in separate processors in parallel for computational efficiency, and the equations for all the unknown connection forces are synthesized and solved in one or several processors. The performances of two implementations of this divide-and-conquer algorithm in multiple processors are compared with an existing method implemented on a single processor.

  3. Efficient parallel architecture for highly coupled real-time linear system applications

    NASA Technical Reports Server (NTRS)

    Carroll, Chester C.; Homaifar, Abdollah; Barua, Soumavo

    1988-01-01

    A systematic procedure is developed for exploiting the parallel constructs of computation in a highly coupled, linear system application. An overall top-down design approach is adopted. Differential equations governing the application under consideration are partitioned into subtasks on the basis of a data flow analysis. The interconnected task units constitute a task graph which has to be computed in every update interval. Multiprocessing concepts utilizing parallel integration algorithms are then applied for efficient task graph execution. A simple scheduling routine is developed to handle task allocation while in the multiprocessor mode. Results of simulation and scheduling are compared on the basis of standard performance indices. Processor timing diagrams are developed on the basis of program output accruing to an optimal set of processors. Basic architectural attributes for implementing the system are discussed together with suggestions for processing element design. Emphasis is placed on flexible architectures capable of accommodating widely varying application specifics.

  4. Advanced data management system architectures testbed

    NASA Technical Reports Server (NTRS)

    Grant, Terry

    1990-01-01

    The objective of the Architecture and Tools Testbed is to provide a working, experimental focus to the evolving automation applications for the Space Station Freedom data management system. Emphasis is on defining and refining real-world applications including the following: the validation of user needs; understanding system requirements and capabilities; and extending capabilities. The approach is to provide an open, distributed system of high performance workstations representing both the standard data processors and networks and advanced RISC-based processors and multiprocessor systems. The system provides a base from which to develop and evaluate new performance and risk management concepts and for sharing the results. Participants are given a common view of requirements and capability via: remote login to the testbed; standard, natural user interfaces to simulations and emulations; special attention to user manuals for all software tools; and E-mail communication. The testbed elements which instantiate the approach are briefly described including the workstations, the software simulation and monitoring tools, and performance and fault tolerance experiments.

  5. Design and Implementation of a Threaded Search Engine for Tour Recommendation Systems

    NASA Astrophysics Data System (ADS)

    Lee, Junghoon; Park, Gyung-Leen; Ko, Jin-Hee; Shin, In-Hye; Kang, Mikyung

    This paper implements a threaded scan engine for the O(n!) search space and measures its performance, aiming at providing a responsive tour recommendation and scheduling service. As a preliminary step of integrating POI ontology, mobile object database, and personalization profile for the development of new vehicular telematics services, this implementation can give a useful guideline to design a challenging and computation-intensive vehicular telematics service. The implemented engine allocates the subtree to the respective threads and makes them run concurrently exploiting the primitives provided by the operating system and the underlying multiprocessor architecture. It also makes it easy to add a variety of constraints, for example, the search tree is pruned if the cost of partial allocation already exceeds the current best. The performance measurement result shows that the service can run even in the low-power telematics device when the number of destinations does not exceed 15, with an appropriate constraint processing.

  6. Numerical Study of a System of Long Josephson Junctions with Inductive and Capacitive Couplings

    NASA Astrophysics Data System (ADS)

    Rahmonov, I. R.; Shukrinov, Yu. M.; Plecenik, A.; Zemlyanaya, E. V.; Bashashin, M. V.

    2016-02-01

    The phase dynamics of the stacked long Josephson junctions is investigated taking into account the inductive and capacitive couplings between junctions and the diffusion current. The simulation of the current-voltage characteristics is based on the numerical solution of a system of nonlinear partial differential equations by a fourth order Runge-Kutta method and finite-difference approximation. A parallel implementation is based on the MPI technique. The effectiveness of the MPI/C++ code is confirmed by calculations on the multi-processor cluster CICC (LIT JINR, Dubna). We demonstrate the appearance of the charge traveling wave (CTW) at the boundary of the zero field step. Based on this fact, we conclude that the CTW and the fluxons coexist.

  7. Measurement and analysis of workload effects on fault latency in real-time systems

    NASA Technical Reports Server (NTRS)

    Woodbury, Michael H.; Shin, Kang G.

    1990-01-01

    The authors demonstrate the need to address fault latency in highly reliable real-time control computer systems. It is noted that the effectiveness of all known recovery mechanisms is greatly reduced in the presence of multiple latent faults. The presence of multiple latent faults increases the possibility of multiple errors, which could result in coverage failure. The authors present experimental evidence indicating that the duration of fault latency is dependent on workload. A synthetic workload generator is used to vary the workload, and a hardware fault injector is applied to inject transient faults of varying durations. This method makes it possible to derive the distribution of fault latency duration. Experimental results obtained from the fault-tolerant multiprocessor at the NASA Airlab are presented and discussed.

  8. Distributed computing feasibility in a non-dedicated homogeneous distributed system

    NASA Technical Reports Server (NTRS)

    Leutenegger, Scott T.; Sun, Xian-He

    1993-01-01

    The low cost and availability of clusters of workstations have lead researchers to re-explore distributed computing using independent workstations. This approach may provide better cost/performance than tightly coupled multiprocessors. In practice, this approach often utilizes wasted cycles to run parallel jobs. The feasibility of such a non-dedicated parallel processing environment assuming workstation processes have preemptive priority over parallel tasks is addressed. An analytical model is developed to predict parallel job response times. Our model provides insight into how significantly workstation owner interference degrades parallel program performance. A new term task ratio, which relates the parallel task demand to the mean service demand of nonparallel workstation processes, is introduced. It was proposed that task ratio is a useful metric for determining how large the demand of a parallel applications must be in order to make efficient use of a non-dedicated distributed system.

  9. Memory System Technologies for Future High-End Computing Systems

    SciTech Connect

    McKee, S A; de Supinski, B R; Mueller, F; Tyson, G S

    2003-05-16

    Our ability to solve Grand Challenge Problems in computing hinges on the development of reliable and efficient High-End Computing systems. Unfortunately, the increasing gap between memory and processor speeds remains one of the major bottlenecks in modern architectures. Uniprocessor nodes still suffer, but symmetric multiprocessor nodes--where access to physical memory is shared among all processors--are among the hardest hit. In the latter case, the memory system must juggle multiple working sets and maintain memory coherence, on top of simply responding to access requests. To illustrate the severity of the current situation, consider two important examples: even the high-performance parallel supercomputers in use at Department of Energy National labs observe single-processor utilization rates as low as 5%, and transaction processing commercial workloads see utilizations of at most about 33%. A wealth of research demonstrates that traditional memory systems are incapable of bridging the processor/memory performance gap, and the problem continues to grow. The success of future High-End Computing platforms therefore depends on our developing hardware and software technologies to dramatically relieve the memory bottleneck. In order to take better advantage of the tremendous computing power of modern microprocessors and future High-End systems, we consider it crucial to develop the hardware for intelligent, adaptable memory systems; the middleware and OS modifications to manage them; and the compiler technology and performance tools to exploit them. Taken together, these will provide the foundations for meeting the requirements of future generations of performance-critical, parallel systems based on either uniprocessor or SMP nodes (including PIM organizations). We feel that such solutions should not be vendor-specific, but should be sufficiently general and adaptable such that the technologies could be leveraged by any commercial vendor of High-End Computing systems

  10. Performance and evaluation of real-time multicomputer control systems

    NASA Technical Reports Server (NTRS)

    Shin, K. G.

    1985-01-01

    Three experiments on fault tolerant multiprocessors (FTMP) were begun. They are: (1) measurement of fault latency in FTMP; (2) validation and analysis of FTMP synchronization protocols; and investigation of error propagation in FTMP.

  11. A Web-Remote/Robotic/Scheduled Astronomical Data Acquisition System

    NASA Astrophysics Data System (ADS)

    Denny, Robert

    2011-03-01

    Traditionally, remote/robotic observatory operating systems have been custom made for each observatory. While data reduction pipelines need to be tailored for each investigation, the data acquisition process (especially for stare-mode optical images) is often quite similar across investigations. Since 1999, DC-3 Dreams has focused on providing and supporting a remote/robotic observatory operating system which can be adapted to a wide variety of physical hardware and optics while achieving the highest practical observing efficiency and safe/secure web browser user controls. ACP Expert consists of three main subsystems: (1) a robotic list-driven data acquisition engine which controls all aspects of the observatory, (2) a constraint-driven dispatch scheduler with a long-term database of requests, and (3) a built-in "zero admin" web server and dynamic web pages which provide a remote capability for immediate execution and monitoring as well as entry and monitoring of dispatch-scheduled observing requests. No remote desktop login is necessary for observing, thus keeping the system safe and consistent. All routine operation is via the web browser. A wide variety of telescope mounts, CCD imagers, guiding sensors, filter selectors, focusers, instrument-package rotators, weather sensors, and dome control systems are supported via the ASCOM standardized device driver architecture. The system is most commonly employed on commercial 1-meter and smaller observatories used by universities and advanced amateurs for both science and art. One current project, the AAVSO Photometric All-Sky Survey (APASS), uses ACP Expert to acquire large volumes of data in dispatch-scheduled mode. In its first 18 months of operation (North then South), 40,307 sky images were acquired in 117 photometric nights, resulting in 12,107,135 stars detected two or more times. These stars had measures in 5 filters. The northern station covered 754 fields (6446 square degrees) at least twice, the southern

  12. Analysis and determination the efficiency of the European health systems.

    PubMed

    Del Rocío Moreno-Enguix, María; Gómez-Gallego, Juan Cándido; Gómez Gallego, María

    2017-03-20

    The current economic crisis has increased the interest in analyzing the efficiency of health care systems, as their funding is a very important part of the budgets for different countries. In this work determines the efficiency in the health services in European countries applying data envelopment analysis. In addition, the combined application of data envelopment analysis methods and ACP can provide an evaluation of the efficiency with respect to differently oriented productive health systems in the different countries. The results show that models with a lower level of efficiency are those whose input is beds, followed by the models whose input is physicians. Finally, we apply the AD to select a few simple indicators that facilitate control of the level of operational efficiency of a health system.

  13. Nuclear Science Symposium, 31st and Symposium on Nuclear Power Systems, 16th, Orlando, FL, October 31-November 2, 1984, Proceedings

    NASA Technical Reports Server (NTRS)

    Biggerstaff, J. A. (Editor)

    1985-01-01

    Topics related to physics instrumentation are discussed, taking into account cryostat and electronic development associated with multidetector spectrometer systems, the influence of materials and counting-rate effects on He-3 neutron spectrometry, a data acquisition system for time-resolved muscle experiments, and a sensitive null detector for precise measurements of integral linearity. Other subjects explored are concerned with space instrumentation, computer applications, detectors, instrumentation for high energy physics, instrumentation for nuclear medicine, environmental monitoring and health physics instrumentation, nuclear safeguards and reactor instrumentation, and a 1984 symposium on nuclear power systems. Attention is given to the application of multiprocessors to scientific problems, a large-scale computer facility for computational aerodynamics, a single-board 32-bit computer for the Fastbus, the integration of detector arrays and readout electronics on a single chip, and three-dimensional Monte Carlo simulation of the electron avalanche in a proportional counter.

  14. AR/D image processing system

    NASA Technical Reports Server (NTRS)

    Wookey, Cathy; Nicholson, Bruce

    1991-01-01

    General Dynamics has developed advanced hardware, software, and algorithms for use with the Tomahawk cruise missile and other unmanned vehicles. We have applied this technology to the problem of locating and determining the orientation of the docking port of a target vehicle with respect to an approaching spacecraft. The system described in this presentation utilizes a multi-processor based computer to digitize and process television imagery and extract parameters such as range to the target vehicle, approach, velocity, and pitch and yaw angles. The processor is based on the Inmos T-800 Transputer and is configured as a loosely coupled array. Each processor operates asynchronously and has its own local memory. This allows additional processors to be easily added if additional processing power is required for more complex tasks. Total system throughput is approximately 100 MIPS (scalar) and 60 MFLOPS and can be expanded as desired. The algorithm implemented on the system uses a unique adaptive thresholding technique to locate the target vehicle and determine the approximate position of the docking port. A target pattern surrounding the port is than analyzed in the imagery to determine the range and orientation of the target. This information is passed to an autopilot which uses it to perform course and speed corrections. Future upgrades to the processor are described which will enhance its capabilities for a variety of missions.

  15. Evidence of sub-vent biosphere: enzymatic activities in 308 °C deep-sea hydrothermal systems at Suiyo seamount, Izu Bonin Arc, Western Pacific Ocean

    NASA Astrophysics Data System (ADS)

    Takano, Yoshinori; Edazawa, Yae; Kobayashi, Kensei; Urabe, Tetsuro; Marumo, Katsumi

    2005-01-01

    A high-temperature deep-sea hydrothermal system related to dacitic arc-volcanism was drilled using a tethered, submarine rock-drill system as a part of the Archaean Park Project. The benthic multi-coring system (BMS) employed allowed for direct sampling of microorganisms, rocks and fluids beneath hydrothermal vents. The samples examined in this study were from sites APSK 05 and APSK 07 on the Suiyo Seamount of the Izu-Bonin Arc in the Pacific Ocean. Based on the vertical distribution of samples derived from this vigorous sub-vent environment, a model of deep-sea subterranean chemistry and biology was determined detailing optimal microbial activities. Deep-sea hydrothermal sub-vent core samples of dacitic arc-volcanism obtained at the Suiyo Seamount, Izu-Bonin Arc, Western Pacific Ocean were analyzed for acid and alkaline phosphatase enzymatic activities. Useful biomarkers of acid phosphatase (ACP) and alkaline phosphatase (ALP) enzymatic activities were positively correlated against each other and was greatest at the partial middle core sequences; ACP and ALP activities determined were as high as 5.10 and 6.80 nmol/min/g rock, respectively. Biochemical indicators of ACP and ALP were consistent with the origin of biogenic amino acids occupied in the sub-vent region and microbial cell number in the fluid. The significant enzymatic activities demonstrated in this study provides crucial evidence that sub-vent regions represent part of the previously unknown extreme-environment biosphere, extending the known subterranean habitable spaces of, for example, extremophilic microbes. This boring trial was first example of discharging high temperature hydrothermal activities at the frontal arc volcanoes.

  16. Biodegradable mesoporous delivery system for biomineralization precursors

    PubMed Central

    Yang, Hong-ye; Niu, Li-na; Sun, Jin-long; Huang, Xue-qing; Pei, Dan-dan; Huang, Cui; Tay, Franklin R

    2017-01-01

    Scaffold supplements such as nanoparticles, components of the extracellular matrix, or growth factors have been incorporated in conventional scaffold materials to produce smart scaffolds for tissue engineering of damaged hard tissues. Due to increasing concerns on the clinical side effects of using large doses of recombinant bone-morphogenetic protein-2 in bone surgery, it is desirable to develop an alternative nanoscale scaffold supplement that is not only osteoinductive, but is also multifunctional in that it can perform other significant bone regenerative roles apart from stimulation of osteogenic differentiation. Because both amorphous calcium phosphate (ACP) and silica are osteoinductive, a biodegradable, nonfunctionalized, expanded-pore mesoporous silica nanoparticle carrier was developed for loading, storage, and sustained release of a novel, biosilicification-inspired, polyamine-stabilized liquid precursor phase of ACP for collagen biomineralization and for release of orthosilicic acid, both of which are conducive to bone growth. Positively charged poly(allylamine)-stabilized ACP (PAH-ACP) could be effectively loaded and released from nonfunctionalized expanded-pore mesoporous silica nanoparticles (pMSN). The PAH-ACP released from loaded pMSN still retained its ability to infiltrate and mineralize collagen fibrils. Complete degradation of pMSN occurred following unloading of their PAH-ACP cargo. Because PAH-ACP loaded pMSN possesses relatively low cytotoxicity to human bone marrow-derived mesenchymal stem cells, these nanoparticles may be blended with any osteoconductive scaffold with macro- and microporosities as a versatile scaffold supplement to enhance bone regeneration. PMID:28182119

  17. Concurrent algorithms for a mobile robot vision system

    SciTech Connect

    Jones, J.P.; Mann, R.C.

    1988-01-01

    The application of computer vision to mobile robots has generally been hampered by insufficient on-board computing power. The advent of VLSI-based general purpose concurrent multiprocessor systems promises to give mobile robots an increasing amount of on-board computing capability, and to allow computation intensive data analysis to be performed without high-bandwidth communication with a remote system. This paper describes the integration of robot vision algorithms on a 3-dimensional hypercube system on-board a mobile robot developed at Oak Ridge National Laboratory. The vision system is interfaced to navigation and robot control software, enabling the robot to maneuver in a laboratory environment, to find a known object of interest and to recognize the object's status based on visual sensing. We first present the robot system architecture and the principles followed in the vision system implementation. We then provide some benchmark timings for low-level image processing routines, describe a concurrent algorithm with load balancing for the Hough transform, a new algorithm for binary component labeling, and an algorithm for the concurrent extraction of region features from labeled images. This system analyzes a scene in less than 5 seconds and has proven to be a valuable experimental tool for research in mobile autonomous robots. 9 refs., 1 fig., 3 tabs.

  18. The readout and control system of the Dark Energy Camera

    NASA Astrophysics Data System (ADS)

    Honscheid, Klaus; Elliott, Ann; Annis, James; Bonati, Marco; Buckley-Geer, Elizabeth; Castander, Francisco; daCosta, Luiz; Fausti, Angelo; Karliner, Inga; Kuhlmann, Steve; Neilsen, Eric; Patton, Kenneth; Reil, Kevin; Roodman, Aaron; Thaler, Jon; Serrano, Santiago; Soares Santos, Marcelle; Suchyta, Eric

    2012-09-01

    The Dark Energy Camera (DECam) is a new 520 Mega Pixel CCD camera with a 3 square degree field of view designed for the Dark Energy Survey (DES). DES is a high precision, multi-bandpass, photometric survey of 5000 square degrees of the southern sky. DECam is currently being installed at the prime focus of the Blanco 4-m telescope at the Cerro- Tololo International Observatory (CTIO). In this paper we describe SISPI, the data acquisition and control system of the Dark Energy Camera. SISPI is implemented as a distributed multi-processor system with a software architecture based on the Client-Server and Publish-Subscribe design patterns. The underlying message passing protocol is based on PYRO, a powerful distributed object technology system written entirely in Python. A distributed shared variable system was added to support exchange of telemetry data and other information between different components of the system. We discuss the SISPI infrastructure software, the image pipeline, the observer console and user interface architecture, image quality monitoring, the instrument control system, and the observation strategy tool.

  19. 26 CFR 1.401(m)-2 - ACP test.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... to designated Roth contributions. Notwithstanding paragraphs (b)(2)(vi)(A) and (B) of this section, a... distribution of designated Roth contributions. However, the income allocable to a corrective distribution of excess aggregate contributions that are designated Roth contributions is taxed in accordance...

  20. 26 CFR 1.401(m)-2 - ACP test.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... to designated Roth contributions. Notwithstanding paragraphs (b)(2)(vi)(A) and (B) of this section, a... distribution of designated Roth contributions. However, the income allocable to a corrective distribution of excess aggregate contributions that are designated Roth contributions is taxed in accordance...

  1. 26 CFR 1.401(m)-2 - ACP test.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... to designated Roth contributions. Notwithstanding paragraphs (b)(2)(vi)(A) and (B) of this section, a... distribution of designated Roth contributions. However, the income allocable to a corrective distribution of excess aggregate contributions that are designated Roth contributions is taxed in accordance...

  2. Science Advisory Panel Meets to Discuss HLB/ACP

    Technology Transfer Automated Retrieval System (TEKTRAN)

    A group of scientists met in December 2013 as a Science Advisory Panel (SAP) to listen to presentations by the Citrus Research Board (CRB) and the California Department of Food and Agriculture (CDFA) and to respond to questions posed by CDFA personnel and the general public. The goal of the meeting ...

  3. Scheduling algorithms for automatic control systems for technological processes

    NASA Astrophysics Data System (ADS)

    Chernigovskiy, A. S.; Tsarev, R. Yu; Kapulin, D. V.

    2017-01-01

    Wide use of automatic process control systems and the usage of high-performance systems containing a number of computers (processors) give opportunities for creation of high-quality and fast production that increases competitiveness of an enterprise. Exact and fast calculations, control computation, and processing of the big data arrays – all of this requires the high level of productivity and, at the same time, minimum time of data handling and result receiving. In order to reach the best time, it is necessary not only to use computing resources optimally, but also to design and develop the software so that time gain will be maximal. For this purpose task (jobs or operations), scheduling techniques for the multi-machine/multiprocessor systems are applied. Some of basic task scheduling methods for the multi-machine process control systems are considered in this paper, their advantages and disadvantages come to light, and also some usage considerations, in case of the software for automatic process control systems developing, are made.

  4. Optical interconnection networks for high-performance computing systems.

    PubMed

    Biberman, Aleksandr; Bergman, Keren

    2012-04-01

    Enabled by silicon photonic technology, optical interconnection networks have the potential to be a key disruptive technology in computing and communication industries. The enduring pursuit of performance gains in computing, combined with stringent power constraints, has fostered the ever-growing computational parallelism associated with chip multiprocessors, memory systems, high-performance computing systems and data centers. Sustaining these parallelism growths introduces unique challenges for on- and off-chip communications, shifting the focus toward novel and fundamentally different communication approaches. Chip-scale photonic interconnection networks, enabled by high-performance silicon photonic devices, offer unprecedented bandwidth scalability with reduced power consumption. We demonstrate that the silicon photonic platforms have already produced all the high-performance photonic devices required to realize these types of networks. Through extensive empirical characterization in much of our work, we demonstrate such feasibility of waveguides, modulators, switches and photodetectors. We also demonstrate systems that simultaneously combine many functionalities to achieve more complex building blocks. We propose novel silicon photonic devices, subsystems, network topologies and architectures to enable unprecedented performance of these photonic interconnection networks. Furthermore, the advantages of photonic interconnection networks extend far beyond the chip, offering advanced communication environments for memory systems, high-performance computing systems, and data centers.

  5. Economical graphics display system for flight simulation avionics

    NASA Technical Reports Server (NTRS)

    1990-01-01

    During the past academic year the focal point of this project has been to enhance the economical flight simulator system by incorporating it into the aero engineering educational environment. To accomplish this goal it was necessary to develop appropriate software modules that provide a foundation for student interaction with the system. In addition experiments had to be developed and tested to determine if they were appropriate for incorporation into the beginning flight simulation course, AERO-41B. For the most part these goals were accomplished. Experiments were developed and evaluated by graduate students. More work needs to be done in this area. The complexity and length of the experiments must be refined to match the programming experience of the target students. It was determined that few undergraduate students are ready to absorb the full extent and complexity of a real-time flight simulation. For this reason the experiments developed are designed to introduce basic computer architectures suitable for simulation, the programming environment and languages, the concept of math modules, evaluation of acquired data, and an introduction to the meaning of real-time. An overview is included of the system environment as it pertains to the students, an example of a flight simulation experiment performed by the students, and a summary of the executive programming modules created by the students to achieve a user-friendly multi-processor system suitable to an aero engineering educational program.

  6. Scheduling Independent Partitions in Integrated Modular Avionics Systems

    PubMed Central

    Du, Chenglie; Han, Pengcheng

    2016-01-01

    Recently the integrated modular avionics (IMA) architecture has been widely adopted by the avionics industry due to its strong partition mechanism. Although the IMA architecture can achieve effective cost reduction and reliability enhancement in the development of avionics systems, it results in a complex allocation and scheduling problem. All partitions in an IMA system should be integrated together according to a proper schedule such that their deadlines will be met even under the worst case situations. In order to help provide a proper scheduling table for all partitions in IMA systems, we study the schedulability of independent partitions on a multiprocessor platform in this paper. We firstly present an exact formulation to calculate the maximum scaling factor and determine whether all partitions are schedulable on a limited number of processors. Then with a Game Theory analogy, we design an approximation algorithm to solve the scheduling problem of partitions, by allowing each partition to optimize its own schedule according to the allocations of the others. Finally, simulation experiments are conducted to show the efficiency and reliability of the approach proposed in terms of time consumption and acceptance ratio. PMID:27942013

  7. Scheduling Independent Partitions in Integrated Modular Avionics Systems.

    PubMed

    Chen, Jinchao; Du, Chenglie; Han, Pengcheng

    2016-01-01

    Recently the integrated modular avionics (IMA) architecture has been widely adopted by the avionics industry due to its strong partition mechanism. Although the IMA architecture can achieve effective cost reduction and reliability enhancement in the development of avionics systems, it results in a complex allocation and scheduling problem. All partitions in an IMA system should be integrated together according to a proper schedule such that their deadlines will be met even under the worst case situations. In order to help provide a proper scheduling table for all partitions in IMA systems, we study the schedulability of independent partitions on a multiprocessor platform in this paper. We firstly present an exact formulation to calculate the maximum scaling factor and determine whether all partitions are schedulable on a limited number of processors. Then with a Game Theory analogy, we design an approximation algorithm to solve the scheduling problem of partitions, by allowing each partition to optimize its own schedule according to the allocations of the others. Finally, simulation experiments are conducted to show the efficiency and reliability of the approach proposed in terms of time consumption and acceptance ratio.

  8. Documentation generator for VHDL and MatLab source codes for photonic and electronic systems

    NASA Astrophysics Data System (ADS)

    Niton, B.; Pozniak, K. T.; Romaniuk, R. S.

    2011-06-01

    The UML, which is a complex system modeling and description technology, has recently been expanding its uses in the field of formalization and algorithmic approach to such systems like multiprocessor photonic, optoelectronic and advanced electronics carriers; distributed, multichannel measurement systems; optical networks, industrial electronics, novel R&D solutions. The paper describes a new concept of software dedicated for documenting the source codes written in VHDL and MatLab. The work starts with the analysis of available documentation generators for both programming languages, with an emphasis on the open source solutions. There are presented own solutions which base on the Doxygen program available as a free license with the source code. The supporting tools for parsers building were used like Bison and Flex. The documentation generator application is used for design of large optoelectronic and electronic measurement and control systems. The paper consists of three parts which describe the following components of the documentation generator for photonic and electronic systems: concept, MatLab application and VHDL application. This is part one which describes the system concept. Part two describes the MatLab application. MatLab is used for description of the measured phenomena. Part three describes the VHDL application. VHDL is used for behavioral description of the optoelectronic system. All the proposed approach and application documents big, complex software configurations for large systems.

  9. Software architecture for a distributed real-time system in Ada, with application to telerobotics

    NASA Technical Reports Server (NTRS)

    Olsen, Douglas R.; Messiora, Steve; Leake, Stephen

    1992-01-01

    The architecture structure and software design methodology presented is described in the context of telerobotic application in Ada, specifically the Engineering Test Bed (ETB), which was developed to support the Flight Telerobotic Servicer (FTS) Program at GSFC. However, the nature of the architecture is such that it has applications to any multiprocessor distributed real-time system. The ETB architecture, which is a derivation of the NASA/NBS Standard Reference Model (NASREM), defines a hierarchy for representing a telerobot system. Within this hierarchy, a module is a logical entity consisting of the software associated with a set of related hardware components in the robot system. A module is comprised of submodules, which are cyclically executing processes that each perform a specific set of functions. The submodules in a module can run on separate processors. The submodules in the system communicate via command/status (C/S) interface channels, which are used to send commands down and relay status back up the system hierarchy. Submodules also communicate via setpoint data links, which are used to transfer control data from one submodule to another. A submodule invokes submodule algorithms (SMA's) to perform algorithmic operations. Data that describe or models a physical component of the system are stored as objects in the World Model (WM). The WM is a system-wide distributed database that is accessible to submodules in all modules of the system for creating, reading, and writing objects.

  10. Evolution of the ATLAS Nightly Build System

    NASA Astrophysics Data System (ADS)

    Undrus, A.

    2012-12-01

    The ATLAS Nightly Build System is a major component in the ATLAS collaborative software organization, validation, and code approval scheme. For over 10 years of development it has evolved into a factory for automatic release production and grid distribution. The 50 multi-platform branches of ATLAS releases provide vast opportunities for testing new packages, verification of patches to existing software, and migration to new platforms and compilers for ATLAS code that currently contains 2200 packages with 4 million C++ and 1.4 million python scripting lines written by about 1000 developers. Recent development was focused on the integration of ATLAS Nightly Build and Installation systems. The nightly releases are distributed and validated and some are transformed into stable releases used for data processing worldwide. The ATLAS Nightly System is managed by the NICOS control tool on a computing farm with 50 powerful multiprocessor nodes. NICOS provides the fully automated framework for the release builds, testing, and creation of distribution kits. The ATN testing framework of the Nightly System runs unit and integration tests in parallel suites, fully utilizing the resources of multi-core machines, and provides the first results even before compilations complete. The NICOS error detection system is based on several techniques and classifies the compilation and test errors according to their severity. It is periodically tuned to place greater emphasis on certain software defects by highlighting the problems on NICOS web pages and sending automatic e-mail notifications to responsible developers. These and other recent developments will be presented and future plans will be described.

  11. Design consideration in constructing high performance embedded Knowledge-Based Systems (KBS)

    NASA Technical Reports Server (NTRS)

    Dalton, Shelly D.; Daley, Philip C.

    1988-01-01

    As the hardware trends for artificial intelligence (AI) involve more and more complexity, the process of optimizing the computer system design for a particular problem will also increase in complexity. Space applications of knowledge based systems (KBS) will often require an ability to perform both numerically intensive vector computations and real time symbolic computations. Although parallel machines can theoretically achieve the speeds necessary for most of these problems, if the application itself is not highly parallel, the machine's power cannot be utilized. A scheme is presented which will provide the computer systems engineer with a tool for analyzing machines with various configurations of array, symbolic, scaler, and multiprocessors. High speed networks and interconnections make customized, distributed, intelligent systems feasible for the application of AI in space. The method presented can be used to optimize such AI system configurations and to make comparisons between existing computer systems. It is an open question whether or not, for a given mission requirement, a suitable computer system design can be constructed for any amount of money.

  12. Arrangement techniques of proteins and cells using amorphous calcium phosphate nanofiber scaffolds

    NASA Astrophysics Data System (ADS)

    Nonoyama, Takayuki; Kinoshita, Takatoshi; Higuchi, Masahiro; Nagata, Kenji; Tanaka, Masayoshi; Kamada, Mari; Sato, Kimiyasu; Kato, Katsuya

    2012-12-01

    We demonstrate arrangement techniques of proteins and cells using an amorphous calcium phosphate (ACP) nanofiber scaffold. It is well known that protein andosteoblastic cell are preferably adsorbed onto ACP surface. The ACP nanofiber scaffold was prepared by calcium phosphate mineralization on a polypeptide monolayer-coated mica substrate, and ACP nanofibers were oriented unidirectionaly. In a protein system, the ACP nanofiber scaffold was soaked in a fluorescein isothiocyanate conjugated immunoglobulin G (IgG-FITC) aqueous solution. From fluorescence microscopic measurement, the adsorbed IgG-FITC was highly confined and arranged on the ACP nanofiber. In a cell system, a mouse osteoblast-like cell (MC3T3-E1) behavior on the ACP nanofiber scaffold was observed. The cell was elongated unidirectionaly, and its cytoskeletal shape showed high aspect ratio. These results are clearly different from an ACP bulk template or bare mica substrate, and the arrangement technique enable to fabricate a fine-tuned biomaterial template.

  13. Terminal Area Simulation System User's Guide - Version 10.0

    NASA Technical Reports Server (NTRS)

    Switzer, George F.; Proctor, Fred H.

    2014-01-01

    The Terminal Area Simulation System (TASS) is a three-dimensional, time-dependent, large eddy simulation model that has been developed for studies of wake vortex and weather hazards to aviation, along with other atmospheric turbulence, and cloud-scale weather phenomenology. This document describes the source code for TASS version 10.0 and provides users with needed documentation to run the model. The source code is programed in Fortran language and is formulated to take advantage of vector and efficient multi-processor scaling for execution on massively-parallel supercomputer clusters. The code contains different initialization modules allowing the study of aircraft wake vortex interaction with the atmosphere and ground, atmospheric turbulence, atmospheric boundary layers, precipitating convective clouds, hail storms, gust fronts, microburst windshear, supercell and mesoscale convective systems, tornadic storms, and ring vortices. The model is able to operate in either two- or three-dimensions with equations numerically formulated on a Cartesian grid. The primary output from the TASS is time-dependent domain fields generated by the prognostic equations and diagnosed variables. This document will enable a user to understand the general logic of TASS, and will show how to configure and initialize the model domain. Also described are the formats of the input and output files, as well as the parameters that control the input and output.

  14. Vienna FORTRAN: A FORTRAN language extension for distributed memory multiprocessors

    NASA Technical Reports Server (NTRS)

    Chapman, Barbara; Mehrotra, Piyush; Zima, Hans

    1991-01-01

    Exploiting the performance potential of distributed memory machines requires a careful distribution of data across the processors. Vienna FORTRAN is a language extension of FORTRAN which provides the user with a wide range of facilities for such mapping of data structures. However, programs in Vienna FORTRAN are written using global data references. Thus, the user has the advantage of a shared memory programming paradigm while explicitly controlling the placement of data. The basic features of Vienna FORTRAN are presented along with a set of examples illustrating the use of these features.

  15. Programming robotics applications on an advanced hypercube multiprocessor

    SciTech Connect

    Barhen, J.

    1986-01-01

    Specialized computer architectures for advanced robotics applications at ORNL/CESAR are based on the hypercube ensemble concept. The current status of algorithm development is summarized and results for robot dynamics and navigation problems are presented. 13 refs., 1 tab.

  16. Optically Interconnected Intelligent RAM Multiprocessors (OPTO-IRAM)

    DTIC Science & Technology

    2004-10-01

    periphery. A set of netlists are generated randomly for a specified number of modules. It is also assumed that the SoC operations are pipelined and...factor for the optical 12 cost and is set to be 100 in this research. It turns out that the optical cost is the percentage of the utilization of...Generate population; // Section 3.1.2.1 3. Set the generation number; 4. for (each generation) { 5. Partially matched crossover; // Section

  17. Apparatus for multiprocessor-based control of a multiagent robot

    NASA Technical Reports Server (NTRS)

    Peters, II, Richard Alan (Inventor)

    2009-01-01

    An architecture for robot intelligence enables a robot to learn new behaviors and create new behavior sequences autonomously and interact with a dynamically changing environment. Sensory information is mapped onto a Sensory Ego-Sphere (SES) that rapidly identifies important changes in the environment and functions much like short term memory. Behaviors are stored in a DBAM that creates an active map from the robot's current state to a goal state and functions much like long term memory. A dream state converts recent activities stored in the SES and creates or modifies behaviors in the DBAM.

  18. Ordered fast Fourier transforms on a massively parallel hypercube multiprocessor

    NASA Technical Reports Server (NTRS)

    Tong, Charles; Swarztrauber, Paul N.

    1991-01-01

    The present evaluation of alternative, massively parallel hypercube processor-applicable designs for ordered radix-2 decimation-in-frequency FFT algorithms gives attention to the reduction of computation time-dominating communication. A combination of the order and computational phases of the FFT is accordingly employed, in conjunction with sequence-to-processor maps which reduce communication. Two orderings, 'standard' and 'cyclic', in which the order of the transform is the same as that of the input sequence, can be implemented with ease on the Connection Machine (where orderings are determined by geometries and priorities. A parallel method for trigonometric coefficient computation is presented which does not employ trigonometric functions or interprocessor communication.

  19. A partitioning strategy for nonuniform problems on multiprocessors

    NASA Technical Reports Server (NTRS)

    Berger, M. J.; Bokhari, S.

    1985-01-01

    The partitioning of a problem on a domain with unequal work estimates in different subddomains is considered in a way that balances the work load across multiple processors. Such a problem arises for example in solving partial differential equations using an adaptive method that places extra grid points in certain subregions of the domain. A binary decomposition of the domain is used to partition it into rectangles requiring equal computational effort. The communication costs of mapping this partitioning onto different microprocessors: a mesh-connected array, a tree machine and a hypercube is then studied. The communication cost expressions can be used to determine the optimal depth of the above partitioning.

  20. Multiprocessor Scheduling for Hard Real-Time Software

    DTIC Science & Technology

    1990-06-01

    g : graph ; multischedule: out {sequence{task)); feasible : out boolean; bestschedule: out set{sequence(task))) is bestcost : integer := infinity...begin 83 branchandbound(g, multischedule, best_cost, best-schedule); feasible := (bestcost <= 0); end findmultischedule; branchandbound( g : graph ; ms

  1. Benchmarking GNU Radio Kernels and Multi-Processor Scheduling

    DTIC Science & Technology

    2013-01-14

    Performance. GNU Radio, 9 edition, July 2008. http://gnuradio.org/redmine/projects/ gnuradio /wiki/MPSchedulerPerformance. 9 Figure 7: VOLK type conversion...Dale, Eric Firing, and Michael Droettboom. mat- plotlib, November 2012. http://matplotlib.org/contents.html. [6] Sean Nowlan. Discuss- gnuradio ...November 2011. http://lists.gnu.org/archive/html/discuss- gnuradio /2011- 11/msg00151.html. [7] George Nychis, Thibaud Hottelier, Zhuocheng Yang, Srinivasan

  2. Fair dynamic arbitration for a multiprocessor communications bus

    SciTech Connect

    Knott, J.D.; Crockett, T.W.

    1982-09-01

    The finite element machine (FEM) is an experimental parallel computer consisting of an array of 36 asynchronous microcomputers. One method of interprocessor communication of FEM is a bi-directional parallel bus which uses a dynamic arbitration scheme to increase bus bandwidth. Testing of this bus revealed an imbalance in transfer rates for individual processors. The imbalance was traced to a defect in arbiter design, and two criteria were identified which must be met to ensure fair dynamic arbitration. These involve (1) priority sequencing, and (2) the efficiency of the arbiter. 3 references.

  3. Performance effects of irregular communications patterns on massively parallel multiprocessors

    NASA Technical Reports Server (NTRS)

    Saltz, Joel; Petiton, Serge; Berryman, Harry; Rifkin, Adam

    1991-01-01

    A detailed study of the performance effects of irregular communications patterns on the CM-2 was conducted. The communications capabilities of the CM-2 were characterized under a variety of controlled conditions. In the process of carrying out the performance evaluation, extensive use was made of a parameterized synthetic mesh. In addition, timings with unstructured meshes generated for aerodynamic codes and a set of sparse matrices with banded patterns on non-zeroes were performed. This benchmarking suite stresses the communications capabilities of the CM-2 in a range of different ways. Benchmark results demonstrate that it is possible to make effective use of much of the massive concurrency available in the communications network.

  4. A Connectionist Simulator for the BBN Butterfly Multiprocessor.

    DTIC Science & Technology

    1986-01-01

    was implemented on the BBN Butterfl \\ Multipro- cessor in order to increase the size of networks which can be simulated efficienth. The Butterfly at the...possible. 3.2. Integer arithmetic Because the Butterfl ) does not have floating point hardware, we have to decided to represent all values as integers

  5. Simulation Analysis of Data Sharing in Shared Memory Multiprocessors

    DTIC Science & Technology

    2016-06-14

    Submitted in partial satisfaction of the requirements for the degree of DOCfOR OF PHILOSOPHY in COMPUTER SCIENCE in the GRADUATE DMSION of the...California at Berkeley,Department of Electrical Engineering and Computer Sciences ,Berkeley,CA,94720 8. PERFORMING ORGANIZATION REPORT NUMBER 9...Susan J. Eggers Computer Science Division University of California Berkeley CA 94720 ABSTRACT This dissertation examines shared memory reference

  6. New spectral line multibeam correlator system for the James Clerk Maxwell Telescope

    NASA Astrophysics Data System (ADS)

    Hovey, Gary J.; Burgess, Thomas A.; Casorso, Ronald V.; Dent, William R.; Dewdney, Peter E.; Force, Brian; Lightfoot, John F.; Willis, Anthony G.; Yeung, Keith K.

    2000-07-01

    A new Auto-Correlation Spectral Imaging System (ACSIS) for the James Clerk Maxwell Telescope (JCMT) is being developed at the National Research Council of Canada, in collaboration with the Joint Astronomy Centre and the United Kingdom Astronomy Technology Centre. The system is capable of computing the integrated power-spectra over 1-GHz bandwidths for up to 32 receiver beams every 50 ms. An innovative, multiprocessor computer will produce calibrated, gridded, 3-D data cubes so that they can be viewed in real-time and are in hand when an observation is over. When connected to arrays of receivers at the Nasmyth focus of the telescope, the system will be able to rapidly make large-scale images with high spectral resolution and map multiple transitions. The ACSIS system will be mated initially with the multibeam 350-GHz receiver system. Heterodyne ARray Program (HARP), under development at the Mullard Radio Astronomy Observatory in Cambridge, England. In this paper we describe ACSIS, how it is designed and the results of key performance tests made.

  7. Frequency-dependent performance analysis of a parallel DSP-based computer system

    NASA Astrophysics Data System (ADS)

    Christou, Ch. S.

    2014-11-01

    The performance of a shared-memory low-cost high-performance DSP-Based multiprocessor system [3] is investigated, by varying the frequency of the core processor from 200MHz to 1GHZ, in steps of 200 MHZ, and keeping constant parameters such as the shared-memory-access-time and the prefetching-workload-size. The innovation of this Parallel DSP-Based computer system is the introduction of two small programmable small fast memories (Twins) between the processor and the shared bus interconnect. While one memory (Twin) transfers data from/to the shared memory, the other Twin supplies the core DSP-processor with data. Results indicate an increase of the shared-bus bottleneck as the core DSP processors' clock-rate increases. Workload of the Twins is processed faster thus greater the demand of the shared-bus. Results show an effectively supported robust parallel shared-memory system where fewer but faster (clocked with higher frequency) processors produce the same execution times as a greater number of slower processors, with most system configurations achieving perfect speedups, mainly due to the twin-prefetching mechanism.

  8. A pattern recognition system for prostate mass spectra discrimination based on the CUDA parallel programming model

    NASA Astrophysics Data System (ADS)

    Kostopoulos, Spiros; Glotsos, Dimitris; Sidiropoulos, Konstantinos; Asvestas, Pantelis; Cavouras, Dionisis; Kalatzis, Ioannis

    2014-03-01

    The aim of the present study was to implement a pattern recognition system for the discrimination of healthy from malignant prostate tumors from proteomic Mass Spectroscopy (MS) samples and to identify m/z intervals of potential biomarkers associated with prostate cancer. One hundred and six MS-spectra were studied in total. Sixty three spectra corresponded to healthy cases (PSA < 1) and forty three spectra were cancerous (PSA > 10). The MS-spectra are publicly available from the NCI Clinical Proteomics Database. The pre-processing comprised the steps: denoising, normalization, peak extraction and peak alignment. Due to the enormous number of features that rose from MS-spectra as informative peaks, and in order to secure optimum system design, the classification task was performed by programming in parallel the multiprocessors of an nVIDIA GPU card, using the CUDA framework. The proposed system achieved 98.1% accuracy. The identified m/z intervals displayed significant statistical differences between the two classes and were found to possess adequate discriminatory power in characterizing prostate samples, when employed in the design of the classification system. Those intervals should be further investigated since they might lead to the identification of potential new biomarkers for prostate cancer.

  9. Introducing CAVASS: a Computer-Assisted Visualization and Analysis Software System

    NASA Astrophysics Data System (ADS)

    Grevera, George; Udupa, Jayaram; Odhner, Dewey; Zhuge, Ying; Souza, Andre; Iwanaga, Tad; Mishra, Shipra

    2007-03-01

    The Medical Image Processing Group (MIPG) at the University of Pennsylvania has been developing (and distributing with source code) medical image analysis and visualization software systems for a long period of time. Our most recent system, 3DVIEWNIX, was first released in 1993. Since that time, a number of significant advancements have taken place with regard to computer platforms and operating systems, networking capability, the rise of parallel processing standards, and the development of open source toolkits. The development of CAVASS by our group is the next generation of 3DVIEWNIX. CAVASS will be freely available, open source, and is integrated with toolkits such as ITK and VTK. CAVASS runs on Windows, Unix, and Linux but shares a single code base. Rather than requiring expensive multiprocessor systems, it seamlessly provides for parallel processing via inexpensive COWs (Cluster of Workstations) for more time consuming algorithms. Most importantly, CAVASS is directed at the visualization, processing, and analysis of 3D and higher dimensional medical imagery, so support for DICOM data and the efficient implementation of algorithms is given paramount importance.

  10. CAVASS: a computer assisted visualization and analysis software system - visualization aspects

    NASA Astrophysics Data System (ADS)

    Grevera, George; Udupa, Jayaram; Odhner, Dewey; Zhuge, Ying; Souza, Andre; Iwanaga, Tad; Mishra, Shipra

    2007-03-01

    The Medical Image Processing Group (MIPG) at the University of Pennsylvania has been developing and distributing medical image analysis and visualization software systems for a long period of time. Our most recent system, 3DVIEWNIX, was first released in 1993. Since that time, a number of significant advancements have taken place with regard to computer platforms and operating systems, networking capability, the rise of parallel processing standards, and the development of open source toolkits. The development of CAVASS by our group is the next generation of 3DVIEWNIX. CAVASS will be freely available, open source, and is integrated with toolkits such as ITK and VTK. CAVASS runs on Windows, Unix, and Linux but shares a single code base. Rather than requiring expensive multiprocessor systems, it seamlessly provides for parallel processing via inexpensive COWs (Cluster of Workstations) for more time consuming algorithms. Most importantly, CAVASS is directed at the visualization, processing, and analysis of medical imagery, so support for 3D and higher dimensional medical image data and the efficient implementation of algorithms is given paramount importance. This paper focuses on aspects of visualization. All of the most of the popular modes of visualization including various 2D slice modes, reslicing, MIP, surface rendering, volume rendering, and animation are incorporated into CAVASS.

  11. Bi-Level Integrated System Synthesis (BLISS) for Concurrent and Distributed Processing

    NASA Technical Reports Server (NTRS)

    Sobieszczanski-Sobieski, Jaroslaw; Altus, Troy D.; Phillips, Matthew; Sandusky, Robert

    2002-01-01

    The paper introduces a new version of the Bi-Level Integrated System Synthesis (BLISS) methods intended for optimization of engineering systems conducted by distributed specialty groups working concurrently and using a multiprocessor computing environment. The method decomposes the overall optimization task into subtasks associated with disciplines or subsystems where the local design variables are numerous and a single, system-level optimization whose design variables are relatively few. The subtasks are fully autonomous as to their inner operations and decision making. Their purpose is to eliminate the local design variables and generate a wide spectrum of feasible designs whose behavior is represented by Response Surfaces to be accessed by a system-level optimization. It is shown that, if the problem is convex, the solution of the decomposed problem is the same as that obtained without decomposition. A simplified example of an aircraft design shows the method working as intended. The paper includes a discussion of the method merits and demerits and recommendations for further research.

  12. Population-based learning of load balancing policies for a distributed computer system

    NASA Technical Reports Server (NTRS)

    Mehra, Pankaj; Wah, Benjamin W.

    1993-01-01

    Effective load-balancing policies use dynamic resource information to schedule tasks in a distributed computer system. We present a novel method for automatically learning such policies. At each site in our system, we use a comparator neural network to predict the relative speedup of an incoming task using only the resource-utilization patterns obtained prior to the task's arrival. Outputs of these comparator networks are broadcast periodically over the distributed system, and the resource schedulers at each site use these values to determine the best site for executing an incoming task. The delays incurred in propagating workload information and tasks from one site to another, as well as the dynamic and unpredictable nature of workloads in multiprogrammed multiprocessors, may cause the workload pattern at the time of execution to differ from patterns prevailing at the times of load-index computation and decision making. Our load-balancing policy accommodates this uncertainty by using certain tunable parameters. We present a population-based machine-learning algorithm that adjusts these parameters in order to achieve high average speedups with respect to local execution. Our results show that our load-balancing policy, when combined with the comparator neural network for workload characterization, is effective in exploiting idle resources in a distributed computer system.

  13. Improvement of FK506 production in Streptomyces tsukubaensis by genetic enhancement of the supply of unusual polyketide extender units via utilization of two distinct site-specific recombination systems.

    PubMed

    Chen, Dandan; Zhang, Qi; Zhang, Qinglin; Cen, Peilin; Xu, Zhinan; Liu, Wen

    2012-08-01

    FK506 is a potent immunosuppressant that has a wide range of clinical applications. Its 23-member macrocyclic scaffold, mainly with a polyketide origin, features two methoxy groups at C-13 and C-15 and one allyl side chain at C-21, due to the region-specific incorporation of two unusual extender units derived from methoxymalonyl-acyl carrier protein (ACP) and allylmalonyl-coenzyme A (CoA), respectively. Whether their intracellular formations can be a bottleneck for FK506 production remains elusive. In this study, we report the improvement of FK506 yield in the producing strain Streptomyces tsukubaensis by the duplication of two sets of pathway-specific genes individually encoding the biosyntheses of these two extender units, thereby providing a promising approach to generate high-FK506-producing strains via genetic manipulation. Taking advantage of the fact that S. tsukubaensis is amenable to two actinophage (ΦC31 and VWB) integrase-mediated recombination systems, we genetically enhanced the biosyntheses of methoxymalonyl-ACP and allylmalonyl-CoA, as indicated by transcriptional analysis. Together with the optimization of glucose supplementation, the maximal FK506 titer eventually increased by approximately 150% in comparison with that of the original strain. The strategy of engineering the biosynthesis of unusual extender units described here may be applicable to improving the production of other polyketide or nonribosomal peptide natural products that contain pathway-specific building blocks.

  14. NETRA: A parallel architecture for integrated vision systems. 1: Architecture and organization

    NASA Technical Reports Server (NTRS)

    Choudhary, Alok N.; Patel, Janak H.; Ahuja, Narendra

    1989-01-01

    Computer vision is regarded as one of the most complex and computationally intensive problems. An integrated vision system (IVS) is considered to be a system that uses vision algorithms from all levels of processing for a high level application (such as object recognition). A model of computation is presented for parallel processing for an IVS. Using the model, desired features and capabilities of a parallel architecture suitable for IVSs are derived. Then a multiprocessor architecture (called NETRA) is presented. This architecture is highly flexible without the use of complex interconnection schemes. The topology of NETRA is recursively defined and hence is easily scalable from small to large systems. Homogeneity of NETRA permits fault tolerance and graceful degradation under faults. It is a recursively defined tree-type hierarchical architecture where each of the leaf nodes consists of a cluster of processors connected with a programmable crossbar with selective broadcast capability to provide for desired flexibility. A qualitative evaluation of NETRA is presented. Then general schemes are described to map parallel algorithms onto NETRA. Algorithms are classified according to their communication requirements for parallel processing. An extensive analysis of inter-cluster communication strategies in NETRA is presented, and parameters affecting performance of parallel algorithms when mapped on NETRA are discussed. Finally, a methodology to evaluate performance of algorithms on NETRA is described.

  15. [Computer-assisted monitoring systems. Use of computer networks and internet technologies].

    PubMed

    Flerov, E V; Sablin, I N; Broĭtman, O G; Tolmachev, V A; Batchaev, Sh S

    2005-01-01

    The automated workplace (AWP) of anesthesiologist developed by the early 1990s provided data collection and processing, viewing of all monitors, and printing of anesthesiological chart (AC). AWP is a subject of continuous modification and adaptation to variable conditions. Computer monitoring including various measuring devises equipped with series interface RS-232 was implemented in Russian Research Center for Surgery. Rapid progress in computer network technologies made it necessary to adapt AWP to operation in computer networks. Since 1999 the computer network has been connected to the Internet. The use of computer technologies, including Internet, provides remote access to AC, thereby providing conditions for remote monitoring. AWP of anesthesiologist can be regarded as an automated control system of the patient state operated by anesthesiologist. Specific features of data processing in AWP are described. The AWP system is planed to be multiprocessor with distributed data flow. The suggested structure of computer network system for surgery rooms meeting the requirements of WWW-technology connected to the Internet is a promising approach to remote monitoring in medicine.

  16. A GPU-based Real-time Software Correlation System for the Murchison Widefield Array Prototype

    NASA Astrophysics Data System (ADS)

    Wayth, Randall B.; Greenhill, Lincoln J.; Briggs, Frank H.

    2009-08-01

    Modern graphics processing units (GPUs) are inexpensive commodity hardware that offer Tflop/s theoretical computing capacity. GPUs are well suited to many compute-intensive tasks including digital signal processing. We describe the implementation and performance of a GPU-based digital correlator for radio astronomy. The correlator is implemented using the NVIDIA CUDA development environment. We evaluate three design options on two generations of NVIDIA hardware. The different designs utilize the internal registers, shared memory, and multiprocessors in different ways. We find that optimal performance is achieved with the design that minimizes global memory reads on recent generations of hardware. The GPU-based correlator outperforms a single-threaded CPU equivalent by a factor of 60 for a 32-antenna array, and runs on commodity PC hardware. The extra compute capability provided by the GPU maximizes the correlation capability of a PC while retaining the fast development time associated with using standard hardware, networking, and programming languages. In this way, a GPU-based correlation system represents a middle ground in design space between high performance, custom-built hardware, and pure CPU-based software correlation. The correlator was deployed at the Murchison Widefield Array 32-antenna prototype system where it ran in real time for extended periods. We briefly describe the data capture, streaming, and correlation system for the prototype array.

  17. A QM-MM interface between CHARMM and TURBOMOLE: implementation and application to systems in bulk phase and biologically active systems.

    PubMed

    Loferer, Markus J; Loeffler, Hannes H; Liedl, Klaus R

    2003-07-30

    The implementation of a hybrid QM-MM approach combining ab initio and density functional methods of TURBOMOLE with the molecular mechanics program package CHARMM is described. An interface has been created to allow data exchange between the two applications. With this method the efficient multiprocessor capabilities of TURBOMOLE can be utilized with CHARMM running as a single processor application. Therefore, features of nonparallel running code in CHARMM like the TRAVEL module for locating saddle points or VIBRAN for the calculation of second derivatives can be exploited by running the CPU intensive QM calculations in parallel. To test the methodology, several small systems are studied with both Hartree-Fock and density functional methods and varying QM-MM boundaries. Also, the computationally efficient RI-J method has been examined for use in QM-MM applications. A B(12) cofactor containing cobalt has been studied, to examine systems with a large QM region and transition metals. All tested methods perform satisfactory in comparison with pure quantum calculations. Additionally, algorithms for the characterization of saddle points have been tested for their potential use in QM-MM problems. The TRAVEL module of CHARMM has been applied to the Menshutkin reaction in the condensed phase, and a saddle point was located. This saddle point was verified by calculation of a steepest descent path connecting educt, transition state, and product, and by calculation of vibrational modes.

  18. Application of Hybrid Real-Time Power System Simulator for Designing and Researching of Relay Protection and Automation

    NASA Astrophysics Data System (ADS)

    Borovikov, Yu S.; Sulaymanov, A. O.; Andreev, M. V.

    2015-10-01

    Development, research and operation of smart grids (SG) with active-adaptive networks (AAS) are actual tasks for today. Planned integration of high-speed FACTS devices greatly complicates complex dynamic properties of power systems. As a result the operating conditions of equipment of power systems are significantly changing. Such situation creates the new actual problem of development and research of relay protection and automation (RPA) which will be able to adequately operate in the SGs and adapt to its regimes. Effectiveness of solution of the problem depends on using tools - different simulators of electric power systems. Analysis of the most famous and widely exploited simulators led to the conclusion about the impossibility of using them for solution of the mentioned problem. In Tomsk Polytechnic University developed the prototype of hybrid multiprocessor software and hardware system - Hybrid Real-Time Power System Simulator (HRTSim). Because of its unique features this simulator can be used for solution of mentioned tasks. This article introduces the concept of development and research of relay protection and automation with usage of HRTSim.

  19. Clinical implementation of the Peregrine Monte Carlo dose calculations system for photon beam therapy

    SciTech Connect

    Albright, N; Bergstrom, P M; Daly, T P; Descalle, M; Garrett, D; House, R K; Knapp, D K; May, S; Patterson, R W; Siantar, C L; Verhey, L; Walling, R S; Welczorek, D

    1999-07-01

    PEREGRINE is a 3D Monte Carlo dose calculation system designed to serve as a dose calculation engine for clinical radiation therapy treatment planning systems. Taking advantage of recent advances in low-cost computer hardware, modern multiprocessor architectures and optimized Monte Carlo transport algorithms, PEREGRINE performs mm-resolution Monte Carlo calculations in times that are reasonable for clinical use. PEREGRINE has been developed to simulate radiation therapy for several source types, including photons, electrons, neutrons and protons, for both teletherapy and brachytherapy. However the work described in this paper is limited to linear accelerator-based megavoltage photon therapy. Here we assess the accuracy, reliability, and added value of 3D Monte Carlo transport for photon therapy treatment planning. Comparisons with clinical measurements in homogeneous and heterogeneous phantoms demonstrate PEREGRINE's accuracy. Studies with variable tissue composition demonstrate the importance of material assignment on the overall dose distribution. Detailed analysis of Monte Carlo results provides new information for radiation research by expanding the set of observables.

  20. Flight evaluation of a computer aided low-altitude helicopter flight guidance system

    NASA Technical Reports Server (NTRS)

    Swenson, Harry N.; Jones, Raymond D.; Clark, Raymond

    1993-01-01

    The Flight Systems Development branch of the U.S. Army's Avionics Research and Development Activity (AVRADA) and NASA Ames Research Center have developed for flight testing a Computer Aided Low-Altitude Helicopter Flight (CALAHF) guidance system. The system includes a trajectory-generation algorithm which uses dynamic programming and a helmet-mounted display (HMD) presentation of a pathway-in-the-sky, a phantom aircraft, and flight-path vector/predictor guidance symbology. The trajectory-generation algorithm uses knowledge of the global mission requirements, a digital terrain map, aircraft performance capabilities, and precision navigation information to determine a trajectory between mission way points that seeks valleys to minimize threat exposure. This system was developed and evaluated through extensive use of piloted simulation and has demonstrated a 'pilot centered' concept of automated and integrated navigation and terrain mission planning flight guidance. This system has shown a significant improvement in pilot situational awareness, and mission effectiveness as well as a decrease in training and proficiency time required for a near terrain, nighttime, adverse weather system. AVRADA's NUH-60A STAR (Systems Testbed for Avionics Research) helicopter was specially modified, in house, for the flight evaluation of the CALAHF system. The near terrain trajectory generation algorithm runs on a multiprocessor flight computer. Global Positioning System (GPS) data are integrated with Inertial Navigation Unit (INU) data in the flight computer to provide a precise navigation solution. The near-terrain trajectory and the aircraft state information are passed to a Silicon Graphics computer to provide the graphical 'pilot centered' guidance, presented on a Honeywell Integrated Helmet And Display Sighting System (IHADSS). The system design, piloted simulation, and initial flight test results are presented.