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The generation challenge programme platform: Semantic standards and workbench for crop science

International Journal of Plant Genomics 2008年第1期2008卷 369601页

作者： Bruskiewich, Richard Senger, Martin Davenport, Guy Ruiz, Manuel Rouard, Mathieu Hazekamp, Tom Takeya, Masaru Doi, Koji Satoh, Kouji Costa, Marcos Simon, Reinhard Balaji, Jayashree Akintunde, Akinnola Mauleon, Ramil Wanchana, Samart Shah, Trushar Anacleto, Mylah Portugal, Arllet Ulat, Victor Jun Thongjuea, Supat Braak, Kyle Ritter, Sebastian Dereeper, Alexis Skofic, Milko Rojas, Edwin Martins, Natalia Pappas, Georgios Alamban, Ryan Almodiel, Roque Barboza, Lord Hendrix Detras, Jeffrey Manansala, Kevin Mendoza, Michael Jonathan Morales, Jeffrey Peralta, Barry Valerio, Rowena Zhang, Yi Gregorio, Sergio Hermocilla, Joseph Echavez, Michael Yap, Jan Michael Farmer, Andrew Schiltz, Gary Lee, Jennifer Casstevens, Terry Jaiswal, Pankaj Meintjes, Ayton Wilkinson, Mark Good, Benjamin Wagner, James Morris, Jane Marshall, David Collins, Anthony Kikuchi, Shoshi Metz, Thomas McLaren, Graham Van Hintum, Theo Crop Research Informatics Laboratory International Rice Research Institute (IRRI) DAPO Box 7777 Metro Manila Philippines Crop Research Informatics Laboratory International Maize and Wheat Improvement Center (CIMMYT) DF 06600 Mexico Apdo. Postal 6-641 Mexico Centre International de Recherche Agronomique Pour le Développement (CIRAD) 34398 Montpellier Cedex 5 Avenue Agropolis France Bioversity International 00057 Maccarese (Fiumicino) Rome Via dei Tre Denari 472/a Italy National Institute for Agrobiological Sciences (NIAS) Tsukuba Ibaraki 305-8602 Kannondai 2-1-2 Japan Empresa Brasileira de Pesquisa Agropecuaria (EMBRAPA) Brasilia DF 70770-900 Parque Estaçao Biologia Final W5 Norte Brazil Centro Internacional de la Papa (CIP) Lima 12 Avenida La Molina 1895 La Molina Peru International Crops Research Institute for the Semi-Arid Tropics Patancheru Andhra Pradesh 502324 India International Center for Agricultural Research in the Dry Areas Aleppo P.O. Box 5466 Syrian Arab Republic National Center for Genetic Engineering and Biotechnology 113 Thailand Science Park Klong Luang Pathumthani 12120 Phahonyothin Road Klong 1 Thailand Institute of Computer Science College of Arts and Sciences University of the Philippines Los Banos Laguna 4031 Philippines Department of Computer Science University of the Philippines Melchor Hall Diliman Quezon City 1101 Philippines National Center for Genome Resources Santa Fe NM 87505 2935 Rodeo Park Drive East United States Scottish Crop Research Institute Invergowrie Dundee DD2 5DA United Kingdom Department of Plant Breeding Cornell University Ithaca NY 14853 United States African Centre for Gene Technologies Lynnwood Ridge 0040 P.O. Box 75011 South Africa Department of Medical Genetics Faculty of Medicine University of British Columbia Vancouver BC V6T 1Z3 Canada School of Computing Science Simon Fraser Universtiy Burnaby BC V5A 1S6 8888 University Drive Canada Bioinformatics Graduate Program Genome Sciences Centre BC

The Generation Challenge programme (GCP) is a global crop research consortium directed toward crop improvement through the application of comparative biology and genetic resources characterization to plant breeding. A key consortium research activity is the development of a GCP crop bioinformatics platform to support GCP research. This platform includes the following: (i) shared, public platform-independent domain models, ontology, and data formats to enable interoperability of data and analysis flows within the platform;(ii) web service and registry technologies to identify, share, and integrate information across diverse, globally dispersed data sources, as well as to access high-performance computational (HPC) facilities for computationally intensive, high-throughput analyses of project data;(iii) platform-specific middleware reference implementations of the domain model integrating a suite of public (largely open-access/-source) databases and software tools into a workbench to facilitate biodiversity analysis, comparative analysis of crop genomic data, and plant breeding decision making.

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A Supervised Constructive Neuro-Immune Network for Pattern Classification

A Supervised Constructive Neuro-Immune Network for Pattern C...

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International Joint Conference on Neural Networks (IJCNN)

作者： H. Knidel L. Nunes de Castro F.J. Von Zuben Laboratory of Bioinformatics and Bioinspired Computing-LBiC Department of Computer Engineering and Industrial Automation-DCA School of Electrical and Computer Engineering-FEEC State University of Campinas-UNICAMP Sao Paulo Brazil Graduate Program in Computer Science Catholic University of Santos Sao Paulo Brazil

This paper proposes a supervised version of a learning algorithm for a constructive neuro-immune network. The proposed methodology is developed by taking ideas from the immune system and learning vector quantization. The resulting classification algorithm is characterized by high-performance, similar to the ones produced by alternative methods in the literature, and parsimonious solutions, with a much smaller set of prototypes per class when compared with the other approaches. The number of prototypes is automatically defined by the convergence criterion. The algorithm requires a single user-defined parameter for training, associated with the convergence criterion, and the computational cost is sufficiently reduced to support applications involving large data sets.

关键词： Pattern classification Immune system Neurons Supervised learning Vector quantization Classification algorithms Prototypes Clustering algorithms Unsupervised learning Artificial neural networks

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A genetic algorithm for the optimization of cable routing

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Systems and Computers in Japan 2006年第7期37卷 61-71页

作者： Ma, Xuan Iida, Kazuhiro Xie, Mengchun Nishino, Junji Odaka, Tomohiro Ogura, Hisakazu Graduate School of Engineering University of Fukui Fukui City 910-8507 Japan Wakayama National College of Technology Gobo City 644-0023 Japan Faculty of Automation and Information Engineering Xi an University of Technology B Techno College Department of Electrical and Computer Engineering Wakayama National College of Technology Information Processing Society of Japan China Mechanical Design Society Department of Systems Engineering University of Electro-Communications Japan Society for Fuzzy Theory and Intelligent Informatics Japanese Academy of Facial Studies Japan Society of Kansei Engineering Graduate Program of Nuclear Power and Energy Safety Engineering Graduate School of Engineering Fukui University IEEE CS ACM IPSJ IEICE JSMBET Department of Human and Artificial Intelligent Systems JSAI Japan SOFT IEEE

In this paper the authors propose a structural method for a genetic algorithm (GA) for the optimization problem of cable routing in which cables have to be laid optimally. When there are no limits on the layout routes, the optimal routes for the individual cables can be found using the Dijkstra method in a finite discrete graph. However, when there are limits on the capacity in the layout routes, optimization cannot be performed using the Dijkstra method. The proposed GA is a two-level hierarchical GA that uses chromosome coding involving two levels. The routes for each cable and the combinations of cable routes are defined respectively, and layout route selection is optimized overall through genetic operations involving these levels. Block crossover and block mutation are used as genetic operations in the first level. In addition, a method to take advantage of lethal genes, which do not satisfy the constraints and are generated in the second level is used. Computer simulations confirm that the two-level hierarchical GA with these genetic operations functions effectively for the optimization problem of cable routing. © 2006 Wiley Periodicals, Inc.

关键词： Electric cable laying

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Determination of NLO Properties from Molecule to Polymer:the Prospective Role of the Elongation Method with Parallelization Technique

Determination of NLO Properties from Molecule to Polymer:the...

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中国化学会第二十五届学术年会

作者： Takeshi Nanri Kazuaki Murakami Petascale System Interconnect （PSI） Project Laboratory Kyushu Univeristy-Computing ＆ Communication Center 3-8-33-710 Momochihama Sawara-ku Fukuoka 814-0001 Japan Petascale System Interconnect （PSI） Project Laboratory Kyushu Univeristy -Computing ＆ Communication Center 3-8-33-710 Momochihama Sawara-ku Fukuoka 814-0001 Japan Department of Informatics Graduate School of Information Science and Electrical Engineering Kyushu University 6-1 Kasuga-koen KasugaFukuoka 816-8580 Japan

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Telemedicine with digital video transport system in Asia -Pacific area

Telemedicine with digital video transport system in Asia -Pa...

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19th International Conference on Advanced Information Networking and Applications, AINA 2005

作者： Nakashima, Naoki Okamura, Koji Hahm, Joon-Soo Kim, Young-Woo Mizushima, Hiroshi Tatsumi, Haruyuki Moon, Byung-In Han, Ho-Seong Park, Yong-Jin Lee, Jae-Hwa Youm, Sung-Kwan Kang, Chul-Hee Shimizu, Shuji Department of Medical Informatics Kyushu University Faculty of Medicine Fukuoka Japan Computing and Communications Center Kyushu University Fukuoka Japan Department of Medicine Hanyang University Medical College Seoul Korea Republic of Research Institute and Hospital National Cancer Center Goyang Gyeonggi Korea Republic of Research Institute National Cancer Center Tokyo Japan Signal Transduction and Medicine Sapporo Medical University Graduate School of Medicine Sapporo Japan Department of Surgery Breast Center Ewha WomansMokdong Hospital Seoul Korea Republic of Department of Surgery Seoul National University Bundang Hospital Seoul Korea Republic of Division of Electrical and Computer Engineering Hanyang University Seoul Korea Republic of Korea Advanced Research Network Seoul Korea Republic of School of Electrical Engineering Korea University Seoul Korea Republic of Department of Endoscopic Diagnostics and Therapeutics Kyushu University Faculty of Medicine Fukuoku Japan

ISBN: (纸本)0769522491

We have established a medical network in Asia-Pacific area with high-quality moving image on a super broad-banded internet line since February 2003. Broadcasting real-time surgery and teleconference with medical-quality videos with Digital Video Transport System (DVTS) were so useful to learn surgical techniques and other medical procedures beyond borders. We have conducted 20 events in categories of teleconference (8 times), live transmission of medical procedure (6 times), and remote attendance to scientific medical meetings (6 times) until September 2004. We had teleconferences among 3 countries in APAN-Hawaii in January 2004 (Japan, Korea and USA), and in APAN-Cairns in July 2004 (Japan, Korea and Australia). There have been no serious transmission/ ethical problems sofar. With these experiences and current achievements, we hope to extend this advanced network system to whole Asia-Pacific countries to share medical skills and knowledge. © 2005 IEEE.

关键词： Telemedicine

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Telemedicine with digital video transport system in Asia-Pacific area

Telemedicine with digital video transport system in Asia-Pac...

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International Conference on Advanced Information Networking and Applications (AINA)

作者： N. Nakashima K. Okamura Joon-Soo Hahm Young-Woo Kim H. Mizushima H. Tatsumi Byung-In Moon Ho-Seong Han Yong-Jin Park Jae-Hwa Lee Sung-Kwan Youm Chul-Hee Kang S. Shimizu Department of Medical Informatics Fukuoka Japan Computing and Communications Center Kyushu University Fukuoka Japan Department of Medicine Hanyang University Medical College Seoul South Korea National Cancer Center Research Institute and Hospital Goyang Gyeonggi South Korea National Cancer Center Research Institute Tokyo Japan Signal Transduction & Medicine Graduate School of Medicine Sapporo Medical University Sapporo Japan Department of Surgery and Breast Center Ewha Womans Mokdong Hospital Seoul South Korea Department of Surgery Bundang Hospital Seoul National University Seoul South Korea Division of Electrical and Computer Engineering Hanyang University Seoul South Korea Korea Advanced Research Network Seoul South Korea School of Electrical Engineering Korea University Seoul South Korea Department of Endoscopic Diagnostics and Therapeutics Kyushu University Fukuoka Japan

We have established a medical network in Asia-Pacific area with high-quality moving image on a super broad-banded Internet line since February 2003. Broadcasting real-time surgery and teleconference with medical-quality videos with digital video transport system (DVTS) were so useful to learn surgical techniques and other medical procedures beyond borders. We have conducted 20 events in categories of teleconference (8 times), live transmission of medical procedure (6 times), and remote attendance to scientific medical meetings (6 times) until September 2004. We had teleconferences among 3 countries in APAN-Hawaii in January 2004 (Japan, Korea and USA), and in APAN-Cairns in July 2004 (Japan, Korea and Australia). There have been no serious transmission/ethical problems so far. With these experiences and current achievements, we hope to extend this advanced network system to whole Asia-Pacific countries to share medical skills and knowledge.

关键词： Telemedicine Biomedical imaging Medical diagnostic imaging Teleconferencing Hospitals Network-on-a-chip Biomedical informatics Computer networks Cancer Oncological surgery

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Journal of Information Science and engineering: Editorial notice

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Journal of Information Science and engineering 2005年第5期21卷 i-ii页

作者： Lee, Der-Tsai Amato, Nancy M. Chang, Shih-Fu Chen, Homer H. Chen, Tsuhan Hsu, Tsan-Sheng Hwang, Jenq-Neng Kuo, Sy-Yen Kuo, Tei-Wei Li, Chung-Sheng Tokuyama, Takeshi Wing, Jeannette Wu, Tzong-Chen Yen, John Computer Science at Texas A and M University United States Parasol Laboratory United States IEEE Transactions on Parallel and Distributed Systems Computing Research Association's Committee on the Status of Women in Computing Research CRA-W's Distributed Mentor Program United States Department of Electrical Engineering Columbia University United States Lab. United States College of Electrical Engineering and Computer Science National Taiwan University Taiwan IEEE Transactions on Circuits and Systems for Video Technology IEEE Department of Electrical and Computer Engineering Carnegie Mellon University Pittsburgh PA United States ACM ACM SIGACT IEEE Computer Society IICM Austria Research and Development of the Department Multimedia Signal Processing Technical Committee IEEE Signal Processing Society United States IEEE Transactions on Circuits and systems for Video Technology College of Electrical Engineering and Computer Science National Taiwan Ocean University Keelung Taiwan Department of Electrical Engineering National Taiwan University Taiwan Department of Computer Science and Information Engineering National Taiwan University Taipei Taiwan IEEE Technical Committee on Real-Time Systems Computer Science Division IBM T.J. Watson Research Center United States IBM Research Division Graduate School of Information Sciences Tohoku University Japan ACM IPSJ Mathematical Society of Japan Japan Department of Computer Science Computer Science Department Carnegie Mellon University United States National Academies of Science's Computer Science and Telecommunications Board United States Microsoft's Trustworthy Academic Advisory Board Intel Research Pittsburgh's Advisory Board United States Dartmouth's Institute for Security Technology Studies Advisory Committee Canada Sloan Research Fellowships Program Committee United States ACM Taiwan China Information Sciences and Technology Pennsylvania State University United States Laboratory for Intelligent Agents Penn State's School of Info

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Folded preconditioner: A new class of preconditioners for krylov subspace methods to solve redundancy-reduced linear systems of equations

Folded preconditioner: A new class of preconditioners for kr...

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作者： Mifune, Takeshi Takahashi, Yasuhito Iwashita, Takeshi Department of Electrical Engineering Kyoto University Kyoto 615-8510 Japan Department of System Science Graduate School of Informatics Kyoto University Kyoto 606-8501 Japan Academic Center for Computing and Media Studies Kyoto University Kyoto 606-8501 Japan

The A-φ formulation, which is widely used in electromagnetic analysis, leads to a redundant linear system of equations that includes a substantial number of redundant degrees of freedom (DOF). We can derive a redundancy-reduced linear system of equations by eliminating the redundant DOF, thereby decreasing the computation costs per iteration for iterative solvers, such as the incomplete Cholesky conjugate gradient (ICCG) solver. This does not, however, result in a reduction in total computation time, due to significant convergence deterioration. In this paper, we present a solution to this problem in the form of folded preconditioners. First, the theorem presented reveals that, for any preconditioned Krylov subspace method for the original redundant linear systems, we can derive the equivalent Krylov subspace method for the redundancy-reduced linear systems by using the corresponding folded preconditioner. As an uncomplicated example, the standard ICCG solver for the original redundant systems has exactly the same convergence property as the CG solver for the redundancy-reduced systems using the folded variant of the IC preconditioner (the folded IC preconditioner). Furthermore, we discuss efficient computational procedures for the folded preconditioners and the design of Krylov subspace algorithms using the preconditioners. A sample full-wave analysis demonstrates the good performance of a newly developed solver, the conjugate orthogonal conjugate gradient (COCG) method with the folded IC preconditioner. The new solver not only lowers the computation costs per iteration by reducing the number of DOF, but also completely avoids the convergence deterioration. © 2009 IEEE.

关键词： Conjugate gradient method

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