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Biomolecular network visualization based on CPSE-Bio

Biomolecular network visualization based on CPSE-Bio

引用

2012 7th International Conference on computing and Convergence Technology (ICCIT, ICEI and ICACT), ICCCT 2012

作者： Xie, Jiang Yi, Ronggui Huiran, Zhang Zhang, Wu Kawata, Shigeo School of Computer Engineering and Science Shanghai University Shanghai 200444 China Institute of Systems Biology Shanghai University Shanghai 200444 China High Performance Computing Center Shanghai University Shanghai 200444 China Dept. of Advanced Interdisciplinary Sciences Utsunomiya University Utsunomiya 321-8585 Japan

ISBN: (纸本)9788994364216

Biomolecular network is an important research subject of the bioinformatics. A crucial step in biological studies is to understand the biomolecular networks. Visualization is helpful for complex biomolecular network analysis because the network scale is rapidly expanding along with the growth of biological data sets. A novel biomolecular network visualization tool, BNVC (Biomolecular Network Visualization based on Cytoscape Web) has been developed on CPSE-Bio (Cloud based Problem Solving Environment for Bioinformatics) in this paper. The CPSE-Bio is a Problem-Solving-Environment for bioinformatics based on cloud computing platform. The BNVC, as a web-based application, is designed to visualize and analyze complex biomolecular networks, particularly compare two similar networks, which is the first web-based tool to analysis alignment status of complex biomolecular networks based on Cytoscape Web. © 2012 AICIT.

关键词： Data visualization

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Trace chemical and major constituents measurements of the international space station atmosphere by the vehicle cabin atmosphere monitor

Trace chemical and major constituents measurements of the in...

引用

42nd International Conference on Environmental systems 2012, ICES 2012

作者： Darrach, M.R. Chutjian, A. Bornstein, B.J. Croonquist, A.P. Garkanian, V. Hofman, J. Karmon, D. Kenny, J. Kidd, R.D. Lee, S. Macaskill, J.A. Madzunkov, S.M. Mandrake, L. Schaefer, R.T. Toomarian, N. Jet Propulsion Laboratory California Institute of Technology Pasadena CA 91109 United States Atomic and Molecular Physics Group JPL/Caltech Pasadena CA 91109 United States Instrument Autonomy Group JPL/Caltech Pasadena CA 91109 United States MicroDevices Group JPL/Caltech Pasadena CA 91109 United States Optical Communications Group JPL/Caltech Pasadena CA 91109 United States Instruments and Science Data Systems JPL/Caltech Pasadena CA 91109 United States Instrument Integration and Test JPL/Caltech Pasadena CA 91109 United States Planetary Chemistry and Astrobiology JPL/Caltech Pasadena CA 91109 United States High Capacity Computing and Modeling JPL/Caltech Pasadena CA 91109 United States Machine Learning and Instrument Autonomy Group JPL/Caltech Pasadena CA 91109 United States Advanced Computer Systems and Technology JPL/Caltech Pasadena CA 91109 United States Advanced Instrument Concepts JPL/Caltech Pasadena CA 91109 United States

ISBN: (纸本)9781600869341

We report on trace gas and major atmospheric constituents results obtained by the Vehicle Cabin Atmosphere Monitor (VCAM) following almost two years of operation aboard the International Space Station (ISS). VCAM isan autonomous environmental monitor based on a highly compact gas chromatograph/quadrupole ion trap mass spectrometer. It was flown to the International Space Station (ISS) on shuttle mission STS-131 and commenced operations on June 2010. VCAM is capable of providing measurements of both parts-per-billion (ppb) levels of volatile trace-gas constituents, and of the atmospheric major constituents (nitrogen, oxygen, argon, and carbon dioxide) in a space vehicle or station. It is designed to operate autonomously and maintenance-free, approximately once per day, with a self-contained gas supply sufficient for a one-year lifetime. VCAM's performance is sufficient to detect and identify 90% of the target compounds at their 180-day Spacecraft Maximum Allowable Concentration levels. © 2012 by the American Institute of Aeronautics and Astronautics, Inc.

关键词： Gases

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CREATING A CYBER MOVING TARGET FOR CRITICAL INFRASTRUCTURE APPLICATIONS 5th

CREATING A CYBER MOVING TARGET FOR CRITICAL INFRASTRUCTURE A...

引用

5th Annual IFIP Working group 11.10 International Conference on Critical Infrastructure Protection

作者： Okhravi, Hamed Comella, Adam Robinson, Eric Yannalfo, Stephen Michaleas, Peter Haines, Joshua Cyber Systems and Technology Group MIT Lincoln Laboratory Lexington MA United States Rensselaer Polytechnic Institute Troy NY United States Embedded and High Performance Computing Group MIT Lincoln Laboratory Lexington MA United States

ISBN: (纸本)9783642248634

Despite the significant amount of effort that often goes into securing critical infrastructure assets, many systems remain vulnerable to advanced, targeted cyber attacks. This paper describes the design and implementation of the Trusted Dynamic Logical Heterogeneity System (TALENT), a framework for live-migrating critical infrastructure applications across heterogeneous platforms. TALENT permits a running critical application to change its hardware platform and operating system, thus providing cyber survivability through platform diversity. TALENT uses containers (operating-system-level virtualization) and a portable checkpoint compiler to create a virtual execution environment and to migrate a running application across different platforms while preserving the state of the application (execution state, open files and network connections). TALENT is designed to support general applications written in the C programming language. By changing the platform on-the-fly, TALENT creates a cyber moving target and significantly raises the bar for a successful attack against a critical application. Experiments demonstrate that a complete migration can be completed within about one second.

关键词： Cyber moving target platform heterogeneity virtualization

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Topology design and performance analysis for networked earth observing small satellites

Topology design and performance analysis for networked earth...

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MILCOM, Military Communications Conference

作者： Paul Muri Janise McNair Joe Antoon Ann Gordon-Ross Kathryn Cason Norman Fitz-Coy Wireless and Mobile (WAM) Systems Laboratory Department of Electrical and Computer Engineering University of Florida Gainesville FL USA NSF Center of High Performance Reconfigurable Computing (CHREC) Department of Electrical and Computer Engineering University of Florida Gainesville FL USA Space Systems Group (SSG) Department of Mechanical and AeroSpace Engineering University of Florida Gainesville FL USA

In order to network small satellite constellations for Earth observation and communication, several limitations must be addressed, including distributed topology management, slow down-link data-rates, and single point-to-point communication. Since distributed satellite constellations exacerbate the severity of these limitations, thorough analysis of a constellation's network performance is required to ensure that task objectives are achievable. In this paper, we designed network topologies using Satellite Toolkit (STK) for two low Earth orbit (LEO) Earth observing small satellite constellations: a sun-synchronous repeating ground track constellation and a flower (an elliptical repeating ground track) constellation. Both constellations include six sink satellites that provide a high speed down-link relay point to a ground station. We compared the constellations' inter-satellite links and down-links with respect to network metrics including access window time, drop-ratio, and throughput. We evaluated these network metrics using the Network Simulator (ns-2). Though previous works have proposed sun-synchronous and flower small satellite constellations for Earth observation, these constellations have not been analyzed for these network metrics. Results show that the sun-synchronous constellation with a repeating ground track outperforms the flower constellation with respect to more access time, lower drop-ratio, and higher throughput. Additionally, our simulations determined the optimum media access control slot time and packet transmission intervals for long distance satellite links. Further, our method of designing satellite constellation topologies in STK and exporting them to ns-2 can be used for future studies on any desired constellation network performance evaluations.

关键词： Satellites Satellite broadcasting Orbits Earth Satellite constellations Databases Mobile communication

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On-orbit measurements of the ISS atmosphere by the vehicle cabin atmosphere monitor

On-orbit measurements of the ISS atmosphere by the vehicle c...

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41st International Conference on Environmental systems 2011, ICES 2011

作者： Darrach, M.R. Chutjian, A. Bornstein, B.J. Croonquist, A.P. Garkanian, V. Haemmerle, V.R. Hofman, J. Heinrichs, W.M. Karmon, D. Kenny, J. Kidd, R.D. Lee, S. MacAskill, J.A. Madzunkov, S.M. Mandrake, L. Rust, T.M. Schaefer, R.T. Thomas, J.L. Toomarian, N. Jet Propulsion Laboratory California Institute of Technology Pasadena CA 91109 United States Atomic and Molecular Physics Group JPL/Caltech United States Instrument Autonomy Group JPL/Caltech United States MicroDevices Group JPL/CalTech United States Optical Communications Group JPL/Caltech United States Processing Algorithms and Calibration Engineering JPL/Caltech United States Inst System Engineering JPL/Caltech United States Instruments and Science Data Systems JPL/Caltech United States Instrument Integration and Test JPL/Caltech United States Planetary Chemistry and Astrobiology JPL/Caltech United States High Capacity Computing and Modeling JPL/Caltech United States Machine Learning and Instrument Autonomy Group JPL/Caltech United States SpaceX 1 Rocket Rd Hawthorne CA 90250 United States Advanced Computer Systems and Technology JPL/Caltech United States Advanced Instrument Concepts JPL/Caltech United States

ISBN: (纸本)9781600869488

We report on trace gas and major atmospheric constituents results obtained by the Vehicle Cabin Atmosphere Monitor (VCAM) during operations aboard the International Space Station (ISS). VCAM is an autonomous environmental monitor based on a miniature gas chromatograph/mass spectrometer. It was flown to the ISS on shuttle mission STS-131 and commenced operations on 6/10/10. VCAM provides measurements of ppb-to-ppm levels of volatile trace-gas constituents, and of the atmospheric major constituents (nitrogen, oxygen, argon, and carbon dioxide) in a space vehicle or station. It is designed to operate autonomously and maintenance-free, approximately once per day, with a self-contained gas supply sufficient for a one-year lifetime. VCAM is designed to detect and identify 90% of the target compounds at their 180-day Spacecraft Maximum Allowable Concentration levels. © 2011 by the American Institute of Aeronautics and Astronautics, Inc.

关键词： Gases

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Plasmonic waves to electrical current conversion for integrated plasmonic-electronic circuits

Plasmonic waves to electrical current conversion for integra...

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作者： Gu, Mingxia Bai, Ping Chu, Hong Son Li, Er-Ping Advanced Photonics and Plasmonics Group A STAR Institute of High Performance Computing Singapore Singapore

A novel ultra-compact THz-bandwidth plasmon-to-electron converter is reported for hybrid plasmon-electron integrated circuits. 20% of the optical power from plasmonic waveguide can be converted to photocurrent via a n... 详细信息

ISBN: (纸本)9781557528902

关键词： Plasmonics

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high performances of planar hybrid plasmonic waveguide-based structures

High performances of planar hybrid plasmonic waveguide-based...

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作者： Chu, Hong-Son Bai, Ping Li, Er-Ping Advanced Photonics and Plasmonics Group A STAR Institute of High Performance Computing Fusionopolis way 117528 Singapore Singapore

We report a novel planar hybrid plasmonic waveguide which provides low propagation loss, strong mode confinement, high power and intensity in the nano-gap. The 90°-waveguide bends and couplers based on proposed w... 详细信息

ISBN: (纸本)9781557528902

关键词： Plasmonics

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high performances of planar hybrid plasmonic waveguidebased structures

High performances of planar hybrid plasmonic waveguidebased ...

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Conference on Lasers and Electro-Optics (CLEO)

作者： Hong-Son Chu Ping Bai Er-Ping Li A Star Institute of High Performance Computing Advanced Photonics and Plasmonics Group Singapore

ISBN: (纸本)9781557528896

关键词： Plasmons Planar waveguides Optical waveguides Semiconductor waveguides Propagation losses Waveguide components Optical propagation Photonics Couplers Optical waveguide components

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Plasmonic waves to electrical current conversion for integrated plasmonic-electronic circuits

Plasmonic waves to electrical current conversion for integra...

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Conference on Lasers and Electro-Optics (CLEO)

作者： Mingxia Gu Ping Bai Hong Son Chu Er-Ping Li Advanced Photonics and Plasmonics Group ASTAR-Institute of High Performance Computing Singapore

ISBN: (纸本)9781557528896

关键词： Plasmons Circuits Optical waveguides Integrated optics Electromagnetic waveguides Photoconductivity Optical devices Voltage Photodetectors Bandwidth

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Speed-up electronic integrated circuits with plasmonic technology

Speed-up electronic integrated circuits with plasmonic techn...

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IEEE Photonics Conference (IPC)

作者： Er Ping Li Advanced Photonics and Plasmonics Group ASTAR-Institute of High Performance Computing Singapore

This paper proposed to use plasmonic waveguides for on-chip nanoscale optical data transmission. To optically transmit data between electronic devices, plasmonic devices, such as plasmonic sources, modulators, waveguides, switches, filters and detectors are needed. A novel planar hybrid plasmonic waveguide (PHPW), which consists of a low-index stripe sandwiched between a high-index nanowire and a metallic film is reported. A highly confined hybrid mode is formed in the low-index stripe as the result of interaction between photonic mode and plasmonic mode. The combination of the plasmonic and photonic modes across the low-index stripe can simultaneously achieve long propagation length and strong field confinement with high power intensity in the PHPW. The PHPW is based on a planar structure, offering additional degrees of freedoms to design a large variety of high-performance passive and active plasmonic devices such as waveguide bends, waveguide couplers and ring resonators.

关键词： Plasmons Detectors Optical planar waveguides Planar waveguides Optical detectors

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