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26th Annual Computational Neuroscience Meeting (CNS*2017) of the Organization for Computational Neuroscience Antwerp, Belgium, July 15-20, 2017

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BMC NEUROSCIENCE 2017年第SUPPL 1期18卷 59-59页

作者： [Anonymous] Indiana University Purdue University Indianapolis Indianapolis IN 46032 USA Stark Neurosciences Research Institute Indiana University School of Medicine Indianapolis IN 46032 USA Department of Mathematics East Carolina University Greenville NC 27858 USA Jülich Supercomputing Centre Forschungszentrum Jülich 52425 Jülich Germany Future Systems Swiss National Supercomputing Centre 8092 Zurich Switzerland User Engagement and Support Swiss National Supercomputing Centre 6900 Lugano Switzerland Institut de Neurosciences des Systèmes Aix Marseille Univ 13005 Marseille France Simulation Lab Neuroscience Forschungszentrum Jülich Jülich Germany Department of Experimental Psychology Ghent University 9000 Ghent Belgium Donders Center for Cognitive Neuroimaging Radboud University 6525HR Nijmegen The Netherlands Department of Electrical Computer and Energy Engineering University of Colorado Boulder CO 80309 USA Department of Neurosurgery Johns Hopkins School of Medicine Baltimore MD 21287 USA Department of Neurology Johns Hopkins School of Medicine Baltimore MD 21287 USA Department of Otolaryngology Johns Hopkins School of Medicine Baltimore MD 21287 USA INSERM U968 Paris France Sorbonne Universités UPMC University Paris 06 UMR_S 968 Institut de la Vision Paris France CNRS UMR_7210 Paris France Department of Computer Architecture and Technology University of Granada (CITIC) Granada Spain Sorbonne Universités UPMC Univ Paris 06 INSERM CNRS Institut de la Vision Paris France Department of Adaptive Machine Systems Osaka University Osaka Japan Department of Computer Science University of Cergy-Pontoise Cergy-Pontoise France Department of Physics and Astronomy College of Charleston Charleston SC 29424 USA School of Physics Faculty of Science University of Sydney Sydney NSW 2006 Australia Center of Excellence for Integrative Brain Function Australian Research Council Sydney Australia Max Planck Institute for Human Cognitive and Brain Sciences Saxony Lei

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FANTOM5 CAGE profiles of human and mouse samples

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Scientific Data 2017年第1期4卷 1-10页

作者： Noguchi, Shuhei Arakawa, Takahiro Fukuda, Shiro Furuno, Masaaki Hasegawa, Akira Hori, Fumi Ishikawa-Kato, Sachi Kaida, Kaoru Kaiho, Ai Kanamori-Katayama, Mutsumi Kawashima, Tsugumi Kojima, Miki Kubosaki, Atsutaka Manabe, Ri-Ichiroh Murata, Mitsuyoshi Nagao-Sato, Sayaka Nakazato, Kenichi Ninomiya, Noriko Nishiyori-Sueki, Hiromi Noma, Shohei Saijyo, Eri Saka, Akiko Sakai, Mizuho Simon, Christophe Suzuki, Naoko Tagami, Michihira Watanabe, Shoko Yoshida, Shigehiro Arner, Peter Axton, Richard A. Babina, Magda Kenneth Baillie, J. Barnett, Timothy C. Beckhouse, Anthony G. Blumenthal, Antje Bodega, Beatrice Bonetti, Alessandro Briggs, James Brombacher, Frank Carlisle, Ailsa J. Clevers, Hans C. Davis, Carrie A. Detmar, Michael Dohi, Taeko Edge, B. Albert S. Edinger, Matthias Ehrlund, Anna Ekwall, Karl Endoh, Mitsuhiro Enomoto, Hideki Eslami, Afsaneh Fagiolini, Michela Fairbairn, Lynsey Farach-Carson, Mary C. Faulkner, Geoffrey J. Ferrai, Carmelo Fisher, Malcolm E. Forrester, Lesley M. Fujita, Rie Furusawa, Jun-Ichi Geijtenbeek, Teunis B. Gingeras, Thomas Goldowitz, Daniel Guhl, Sven Guler, Reto Gustincich, Stefano Ha, Thomas J. Hamaguchi, Masahide Hara, Mitsuko Hasegawa, Yuki Herlyn, Meenhard Heutink, Peter Hitchens, Kelly J. Hume, David A. Ikawa, Tomokatsu Ishizu, Yuri Kai, Chieko Kawamoto, Hiroshi Kawamura, Yuki I. Kempfle, Judith S. Kenna, Tony J. Kere, Juha Khachigian, Levon M. Kitamura, Toshio Klein, Sarah Peter Klinken, S. Knox, Alan J. Kojima, Soichi Koseki, Haruhiko Koyasu, Shigeo Lee, Weonju Lennartsson, Andreas MacKay-Sim, Alan Mejhert, Niklas Mizuno, Yosuke Morikawa, Hiromasa Morimoto, Mitsuru Moro, Kazuyo Morris, Kelly J. Motohashi, Hozumi Mummery, Christine L. Nakachi, Yutaka Nakahara, Fumio Nakamura, Toshiyuki Nakamura, Yukio Nozaki, Tadasuke Ogishima, Soichi Ohkura, Naganari Ohno, Hiroshi Ohshima, Mitsuhiro Okada-Hatakeyama, Mariko Okazaki, Yasushi Orlando, Valerio Ovchinnikov, Dmitry A. Passier, Robert Patrikakis, Margaret Pombo, Ana Pradhan-Bhatt, Swati Qin, Xian-Yang Rehli, Michael Rizzu, Patrizia Roy, S Division of Genomic Technologies RIKEN Center for Life Science Technologies Yokohama Kanagawa 230-0045 Japan RIKEN Omics Science Center Yokohama Kanagawa 230-0045 Japan Department of Medicine Karolinska Institutet Stockholm 14186 Sweden Karolinska University Hospital Center for Metabolism and Endocrinology Stockholm 14186 Sweden Scottish Centre for Regenerative Medicine University of Edinburgh 5 Little France Drive Edinburgh EH164UU United Kingdom Department of Dermatology and Allergy Charite University Medicine Berlin Charitéplatz 1 Berlin 10117 Germany Roslin Institute and Royal School of Veterinary Studies University of Edinburgh Edinburgh EH259RG United Kingdom Australian Infectious Diseases Research Centre University of Queensland St Lucia 4072 QLD Australia School of Chemistry and Molecular Biosciences University of Queensland St Lucia 4072 QLD Australia Bio-Rad Laboratories Pty Ltd Hercules 94547 CA United States University of Queensland Diamantina Institute University of Queensland Woolloongabba 4102 QLD Australia IRCCS Fondazione Santa Lucia Via del Fosso di Fiorano 64 Rome 00143 Italy Australian Institute for Bioengineering and Nanotechnology University of Queensland Brisbane St Lucia 4072 QLD Australia Division of Immunology Institute of Infectious Diseases and Molecular Medicine University of Cape Town Anzio Road Observatory 7925 South Africa Immunology of Infectious Diseases Faculty of Health Sciences South African Medical Research Council University of Cape Town Anzio Road 7925 South Africa International Centre for Genetic Engineering and Biotechnology Cape Town Component Anzio Road 7925 South Africa Hubrecht Institute Royal Netherlands Academy of Arts and Sciences Uppsalalaan 8 3584 Netherlands University Medical Centre Utrecht Postbus 85500 Utrecht 3508 Netherlands Genomics Cold Spring Harbor Laboratory Cold Spring Harbor New York 11797 NY United States Institute of Pharmaceutical Sciences ETH Zurich Vladi

In the FANTOM5 project, transcription initiation events across the human and mouse genomes were mapped at a single base-pair resolution and their frequencies were monitored by CAGE (Cap Analysis of Gene Expression) coupled with single-molecule sequencing. Approximately three thousands of samples, consisting of a variety of primary cells, tissues, cell lines, and time series samples during cell activation and development, were subjected to a uniform pipeline of CAGE data production. The analysis pipeline started by measuring RNA extracts to assess their quality, and continued to CAGE library production by using a robotic or a manual workflow, single molecule sequencing, and computational processing to generate frequencies of transcription initiation. Resulting data represents the consequence of transcriptional regulation in each analyzed state of mammalian cells. Non-overlapping peaks over the CAGE profiles, approximately 200,000 and 150,000 peaks for the human and mouse genomes, were identified and annotated to provide precise location of known promoters as well as novel ones, and to quantify their activities.

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Tackling the Irregular Strip Packing problem by hybridizing genetic algorithm and bottom-left heuristic

Tackling the Irregular Strip Packing problem by hybridizing ...

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Congress on Evolutionary Computation

作者： Bonfim A. Junior Plácido R. Pinheiro Rommel D. Saraiva Graduate Program in Applied Informatics University of Fortaleza Fortaleza Brazil

ISBN: (纸本)9781479904532

This paper addresses the Irregular Strip Packing problem, a particular case of Cutting and Packing problems in which a set of polygons has to be packed within a rectangular object. To identify good quality solutions, we propose a hybrid methodology based on a meta-heuristic engine (i.e., Genetic Algorithm) and a well known placement heuristic called Bottom-Left. In addition, differently from several approaches presented in the literature, we investigate the application of the No-fit Polygon as a placement tool for obtaining local optima. The results are further improved by a shrinking algorithm that works within the meta-heuristic component. To assess the potentials of the proposed methodology, computational experiments performed on a set of difficult benchmark instances of the Irregular Strip Packing problem are discussed here for evaluation purposes.

关键词： Genetic algorithms Strips Layout Biological cells Shape Benchmark testing Search methods

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Development and evaluation of a hospital-wide healthcare-associated surgical site infection detection algorithm

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Journal of Microbiology, Immunology and Infection 2015年第2期48卷 S43-S43页

作者： Yi-Ju Tseng Bo-Chiang Huang Hui-Chi Lin Ming-Yuan Chen Rung-Ji Shang Wang-Huei Sheng Yee-Chun Chen Feipei Lai Shan-Chwen Chang Children's Hospital Informatics Program Boston Children's Hospital Boston MA USA Graduate Institute of Biomedical Electronics and Bioinformatics National Taiwan University Taiwan Center for Infection Control National Taiwan University Hospital (NTUH) Taiwan Information Systems Office NTUH Taipei Taiwan Department of Internal Medicine NTUH and College of Medicine Taiwan National Institute of Infectious Diseases and Vaccinology National Health Research Institutes Taiwan Department of Computer Science and Information Engineering National Taiwan University Taiwan

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A power-efficient hierarchical network-on-chip topology for stacked 3D ICs

A power-efficient hierarchical network-on-chip topology for ...

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IFIP International Conference on Very Large Scale Integration (VLSI-SoC)

作者： Débora Matos Cezar Reinbrecht Tiago Motta Altamiro Susin PPGC - Graduate Program in Computer Science UFRGS Institute of Informatics Porto Alegre Brazil PPGC - Graduate Program in Computer Science - UFRGS Institute of Informatics Porto Alegre Brazil

Multi-Processors Systems-on-Chip (MPSoCs) are demanding for high performance, low power and high density, and therefore, three-dimensional integrated circuits (3DIC) emerge as a solution to integrate these systems. In order to appropriately interconnect the layers of these systems in terms of flexibility and scalability, a Network-on-Chip (NoC) is typically employed. In this paper, we argue about the scenario of 3D designs, covering all important issues about this new concept. In agreement with all features discussed in this paper, we have proposed a hierarchical 3D topology that meets well the reality of these designs. Experimental results analyze different topologies and show the large benefits in area and power of our proposal.

关键词： Three-dimensional displays Topology Integrated circuit interconnections Network topology Proposals Through-silicon vias Ports (Computers)

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Integration of Cognitive Modeling into the Evaluation of Electronic Health Records

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Proceedings of the International Symposium on Human Factors and Ergonomics in Health Care 2013年第1期2卷 57 - 62页

作者： Leif P. Berg Andrea Mahnke Robert Moritz Human-Computer Interaction Graduate Program Iowa State University Biomedical Informatics Research Center Marshfield Clinic

Previous research has consistently cited the importance of a usable interface in the successful adoption of the electronic health record (EHR). Among the most time intensive EHR activities is Computerized Physician Order Entry (CPOE) a method of creating and modifying orders through an electronic interface. The Marshfield Clinic, a non-profit, regional health care organization in Wisconsin, is in the process of implementing a new CPOE system. As a part of early evaluation, cognitive and behavioral modeling was coupled with formative usability testing to better understand the potential use of a new CPOE design. Participants consisted of 11 medical residents. Results suggest that participants were able to complete the majority of task scenarios in less than 20 seconds per task. Additionally, the integration of a cognitive and behavioral tool provided new evaluation information to help aid in future design efforts.

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Surface measurement by digital holography with new unwrapping method 5

Surface measurement by digital holography with new unwrappin...

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5th International Conference on Advanced Micro-Device Engineering, AMDE 2013

作者： Takahashi, Yoshitaka Sahara, Fuyuki Department of Electronics and Informatics Graduate School of Science and Technology Gunma University 1-5-1 Tenjin-cho Kiryu Gunma376-8515 Japan Education Program of Electronics and Informatics Mathematics and Physics Gunma University 1-5-1 Tenjin-cho Kiryu Gunma376-8515 Japan

ISBN: (纸本)9783038354659

Digital holography can record 3-D image of the object by using one CCD camera. Surface shape can be measured by changing angles of the object-illuminating mirror. But the measured signals are wrapped because of the periodicity of a sinusoidal function, and then phase unwrapping is needed. We have developed a new modified phase unwrapping method and applied it to surface measurement. Unwrapping errors were significantly reduced in comparison to application of the previous method.. © (2015) Trans Tech Publications, Switzerland.

关键词： Surface measurement

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Code compression using Multi-Level Dictionary

Code compression using Multi-Level Dictionary

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2013 IEEE 4th Latin American Symposium on Circuits and Systems, LASCAS 2013

作者： Dias, Wanderson Roger Azevedo Moreno, Edward David Federal University of Amazonas - UFAM Institute of Computing - IComp Post-Graduate Program in Informatics - PPGI Manaus Brazil Federal University of Sergipe - UFS Center for Exact Sciences and Technology - CCET Department of Computing - DComp Aracaju Brazil

ISBN: (纸本)9781424494859

This paper presents a new code compression method in which we merge the Huffman algorithm with the formation of patterns of blocks and three dictionaries. We seek two consecutive blocks in two levels, one of them into compressed code and the other related to uncompressed code. We have used simulation with SimpleScalar and programs from MiBench. Our proposal has achieved a compression rate of 32.6% and 31.9%, respectively, for ARM and MIPS processor. © 2013 IEEE.

关键词： Codes (symbols)

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A Hybrid Methodology for Tackling the Irregular Strip Packing Problem *

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IFAC Proceedings Volumes 2013年第7期46卷 396-401页

作者： Bonfim A. Junior Plácido R. Pinheiro Rommel D. Saraiva Graduate Program in Applied Informatics University of Fortaleza Av. Washington Soares 1321 - J30 60.811-905 Fortaleza - Brazil

This paper presents a hybrid approach for tackling the irregular strip packing problem, which requires a set of polygons to be placed within a rectangular object. The methodology includes a meta-heuristic engine (e.g., a genetic algorithm) that determines the order in which polygons are handled by a placement heuristic. In addition, differently from several approaches presented in the literature, we investigate the application of the no-fit polygon as a placement tool for obtaining local optima. The results are further improved by a shrinking algorithm that works within the meta-heuristic component. To assess the potentials of the proposed methodology, computational experiments performed on a set of difficult benchmark instances of the irregular strip packing problem are discussed here for evaluation purposes.

关键词： Cutting and Packing Nesting and Irregular Shapes Packing Industrial Applications Hybrid Methods Genetic Algorithm

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Service Agile Development Using XP

Service Agile Development Using XP

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2013 IEEE Seventh International Symposium on Service-Oriented System Engineering

作者： Felipe Carvalho Leonardo Guerreiro Azevedo Petrobras-Petróleo Brasileiro S/A Graduate Program in Informatics (PPGI) Federal University of the State of Rio de Janeiro Rio de Janeiro Brazil Applied Informatics Department (DIA) Graduate Program in Informatics (PPGI) Federal University of the State of Rio de Janeiro Rio de Janeiro Brazil

ISBN: (纸本)9781467356596

System development using a Service-Oriented Architecture approach encompasses new roles and tasks as opposed to traditional development. It brings new challenges in different aspects, such as: reuse, flexibility, stakeholders' involvement, business understanding. Considering methods for system development, those aspects are handled by agile methods. However, there is no consensus on how to use agile methods in service-oriented system development. Agile methods can be used in different phases of a software development lifecycle, such as: project management, modeling, software construction, software testing. Extreme programming (XP) is one of the methods more closely related to the construction phase. XP is widely adopted in the industry and offers practices that can be applied to several business contexts. The goal of this work is to propose guidelines and best practices towards service development, focused on the construction phase, in an SOA environment using XP. It goes towards the identification of the shared concerns and the gaps between SOA and XP practices and, additionally, presents open issues and main challenges to be considered when incrementally constructing service solutions with continuous feedback and flexibility to rapidly develop services that meet changing business requirements.

关键词： Service-oriented architecture Semiconductor optical amplifiers Contracts Complexity theory programming

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