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IEEE Symposium Series on Computational Intelligence

作者： Dusan Popovic Jesse Davis Alejandro Sifrim Bart De Moor STADIUS Center for Dynamical Systems Signal Processing and Data Analytics Department of Electrical Engineering (ESAT) KU Leuven Department of Computer Science KU Leuven Wellcome Trust Sanger Institute Wellcome Trust Genome Campus

ISBN: (纸本)9781479975617

Recent developments in the field of gene sequencing technology greatly accelerated discovery of mutations that cause various genetic disorders. At the same time, a typical sequencing experiment generates a large number of candidate mutations, hence detecting single or few causative variants is still a formidable problem. Many computational methods have been proposed to assist this process, from which a large portion employ statistical learning in some form. Consequently, each newly designed algorithm is routinely compared to other competing systems in hope to demonstrate advantageous performance. In this work we review and discuss several issues related to the current practice of evaluation of mutation prioritization algorithms and suggest possible directions for improvements.

关键词： Statistical learning Hereditary Diseases Mutation Hopefulness algorithms Base Sequence Design Algorithm Note Taking computational methods

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Cover Image, Volume 84, Issue 7

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Proteins: Structure, Function, and Bioinformatics 2016年第7期84卷

作者： Wei Wang Juan Liu Lin Sun Department of Computer Science and Technology College of Computer and Information Engineering Henan Normal University Xinxiang 453007 China Laboratory of Computation Intelligence and Information Processing Engineering Technology Research Center for Computing Intelligence and Data Mining Henan Province China Institute of Computer Software School of Computer Wuhan University Wuhan 430072 China

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Abstracts from Hydrocephalus 2016 Abstracts

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FLUIDS AND BARRIERS OF THE CNS 2017年第SUPPL 1期14卷 1-21页

作者： [Anonymous] Johns Hopkins University Baltimore MD USA. Department of Neurosurgery Johns Hopkins University Baltimore MD USA. Johns Hopkins Biostatistics Center Johns Hopkins Bloomberg School of Public Health Baltimore MD USA. Johns Hopkins Bloomberg School of Public Health Baltimore MD USA. Department of Neurosurgery Johns Hopkins University School of Medicine Baltimore MD USA. Johns Hopkins Aramco Healthcare Dhahran Saudi Arabia. Johns Hopkins Hopkins Aramco Healthcare Dhahran Saudi Arabia. Johns Hopkins Aramco Healthcare Ras Tanura Saudi Arabia. Primary Care Johns Hopkins Aramco Healthcare Ras Tanura Saudi Arabia. Bloomberg School of Public Health Johns Hopkins University Baltimore MD USA. Department of Neurosurgery Rhode Island Hospital Providence RI USA. Department of Epidemiology Johns Hopkins Bloomberg School of Public Health Baltimore MD USA. The Interface Group Institute of PhysiologyUniversity of Zurich Zurich Switzerland. Institute of Physiology University of Zurich Zurich Switzerland. Neuroscience Center Zurich and the Zurich Center for Integrative Human Physiology University of Zurich Zurich Switzerland. BioFlowImage Laboratory University of Picardie Jules Verne Amiens France. Reims Mathematics Laboratory University of Reims Champagne-Ardenne Reims France. Image Processing Laboratory University Hospital of Amiens-Picardie Amiens France. BioFlowImage Laboratory Department of Medical Image Processing University Hospital of Picardie Jules Verne Amiens France. Department of Geriatric University Hospital of Toulouse Toulouse France. Departments of Geriatric University Hospital of Toulouse Toulouse France. Department of Geriatry University Hospital Toulouse Toulouse France. Neurosciences department University of Cambridge Cambridge UK. Brain Physics Lab Academic Neurosurgery University of Cambridge Cambridge UK. Department of Nuclear Medicine University Hospital of Toulouse Toulouse France. Department of Nuclear Medicine University Hospit

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Sustainable computational science: The ReScience initiative

arXiv

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arXiv 2017年

作者： Rougier, Nicolas P. Hinsen, Konrad Alexandre, Frédéric Arildsen, Thomas Barba, Lorena Benureau, Fabien C.Y. Titus Brown, C. de Buyl, Pierre Caglayan, Ozan Davison, Andrew P. Delsuc, Marc André Detorakis, Georgios Diem, Alexandra K. Drix, Damien Enel, Pierre Girard, Benoît Guest, Olivia Hall, Matt G. Henriques, Rafael Neto Hinaut, Xavier Jaron, Kamil S. Khamassi, Mehdi Klein, Almar Manninen, Tiina Marchesi, Pietro McGlinn, Dan Metzner, Christoph Petchey, Owen L. Plesser, Hans Ekkehard Poisot, Timothée Ram, Karthik Ram, Yoav Roesch, Etienne Rossant, Cyrille Rostami, Vahid Shifman, Aaron Stimberg, Marcel Stachelek, Joseph Stollmeier, Frank Vaggi, Federico Viejo, Guillaume Vitay, Julien Vostinar, Anya Yurchak, Roman Zito, Tiziano INRIA Bordeaux Sud-Ouest Talence France Institut des Maladies Neurodégénératives Université de Bordeaux CNRS UMR 5293 Bordeaux France LaBRI Université de Bordeaux Bordeaux INP CNRS UMR 5800 Talence France Centre de Biophysique Moléculaire CNRS UPR4301 Orléans France Synchrotron SOLEIL Division Expériences Gif sur Yvette France Department of Electronic Systems Technical Faculty of IT and Design Aalborg University Denmark Department of Mechanical and Aerospace Engineering George Washington University WashingtonDC United States Department of Population Health and Reproduction University of California Davis DavisCA United States Instituut voor Theoretische Fysica KU Leuven Belgium Le Mans France Unité de Neurosciences Information et Complexité CNRS FRE 3693 Gif sur Yvette France Institut de Génétique et de Biologie Moléculaire et Cellulaire INSERM U964 CNRS UMR 7104 Université de Strasbourg Illkirch France Department of Cognitive Sciences University of California Irvine United States Computational Engineering and Design Faculty of Engineering and the Environment University of Southampton United Kingdom Department of Computer Science Humboldt-Universität zu Berlin Friedman Brain Institute Icahn School of Medicine Mount SinaiNY United States Institut des Systèmes Intelligent et de Robotique Sorbonne Universités UPMC Univ Paris 06 CNRS Paris France Experimental Psychology University College London United Kingdom UCL Great Ormond St Institute of Child Health University College London London United Kingdom MRC Cognition and Brain Sciences Unit Cambridge United Kingdom Department of Ecology and Evolution University of Lausanne Lausanne Switzerland Independent scholar Enschede Netherlands BioMediTech Institute and Faculty of Biomedical Sciences and Engineering Tampere University of Technology Tampere Finland Swammerdam Institute for Life Sciences Center for Neuroscience Faculty of Science University of Amsterdam Amsterdam Netherlands Depart

Computer science offers a large set of tools for prototyping, writing, running, testing, validating, sharing and reproducing results, however computational science lags behind. In the best case, authors may provide their source code as a compressed archive and they may feel confident their research is reproducible. But this is not exactly true. Jonathan Buckheit and David Donoho proposed more than two decades ago that an article about computational results is advertising, not scholarship. The actual scholarship is the full software environment, code, and data that produced the result. This implies new workflows, in particular in peer-reviews. Existing journals have been slow to adapt: source codes are rarely requested, hardly ever actually executed to check that they produce the results advertised in the article. ReScience is a peer-reviewed journal that targets computational research and encourages the explicit replication of already published research, promoting new and open-source implementations in order to ensure that the original research can be replicated from its description. To achieve this goal, the whole publishing chain is radically different from other traditional scientific journals. ReScience resides on GitHub where each new implementation of a computational study is made available together with comments, explanations, and software tests. Copyright © 2017, The Authors. All rights reserved.

关键词： Open source software

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A mixture language model for the classification of Chinese online reviews

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International Journal of Information and Communication Technology 2015年第1期7卷 109-122页

作者： Jiang, Ming Wang, Jian Wang, Xingqi Tang, Jingfan Wu, Chunming Institute of Software and Intelligent Technology Hangzhou Dianzi University Hangzhou310018 China Zhejiang Provincial Engineering Center on Media Data Cloud Processing and Analysis Hangzhou Dianzi University Hangzhou310018 China College of Computer Science and Technology Zhejiang University Hangzhou310027 China

In this essay, we propose an unsupervised topic and sentiment mixture model (LSS model) mainly on the basis of LDA model and combining with the sentiment factor, as an approach to sentiment classification of online reviews. There is an extra constraint that all words in a sentence are generated from one topic and one sentiment. Which means the hypothesis of the model is a word in a sentence is of one meaning only. LSS model is totally unsupervised and it needs no labelled corpora or any other sentiment seed words. Experiments show that LSS model performs better than JST model and ASUM model. The F-1 value of sentiment classification is 8% higher than ASUM model and 12.5% than JST model.

关键词： Mixtures

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Phase group synchronization between any signals and its physical characteristics

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Science China(Physics,Mechanics & Astronomy) 2014年第4期57卷 674-679页

作者： DU BaoQiang SHI LinLin CHEN YaoMing DONG ShaoFeng YANG ZhiGang CAO LingZhi GUO ShuTing School of Electric and Information Engineering Zhengzhou University of Light Industry The 20th Research Institute of China Electronics Technology Group Corporation Institute of Signals and Data Processing Xidian University The 27th Research Institute of China Electronics Technology Group Corporation

The phase group synchronization between any signals is further revealed,which is based on proposing the new concepts of the greatest common factor frequency,the least common multiple period,quantized phase shift resolution,equivalent phase comparison frequency and so *** the problem of phase comparison and processing between different frequency signals is solved and shown in *** the basic principle and the variation law of group phase difference,the frequency stability better than 10-14/s can be easily obtained in the time&frequency measurement and control domain,and experimental results also show the phase relations between atomic energy level transition signal and the locked crystal oscillator signal in an active hydrogen atomic clock are strict phase group synchronization,and locked precision with 10-13/s can be reached based on phase group *** phase group synchronization can provide technical support to frequency linking among radio frequency,microwave and light frequency.

关键词： equivalent phase comparison frequency least common multiple period group phase difference group period phase processing phase group synchronization

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Characterizing Multi-media Retrieval Applications

Characterizing Multi-media Retrieval Applications

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International Conference on Parallel processing (ICPP)

作者： Yunping Lu Xin Wang Weihua Zhang Yi Li Wenyun Zhao Shanghai Key Laboratory of Data Science Fudan University Shanghai China State Key Lab of Mathematical Engineering and Advanced Computing Wuxi China Software School Fudan University Shanghai China Parallel Processing Institute Fudan University Shanghai China

Multimedia data, especially image and video data, have become one of the most overwhelming data types on the Internet recently. Considering the user experience and real application requirements, multimedia data always demand a real-time processing speed. As a result, the huge amount of such data make retrieving useful information from them not only data-intensive, but also computation-intensive, which poses significant challenges to current system and architecture designs. Unfortunately, most prior studies focus only on text based retrieval systems or traditional multimedia processing applications. As far as we know, there is no systematic study on analyzing the characteristics of multimedia retrieval applications and how they might impact system and architecture designs. In this paper, we make the first attempt to construct a multimedia retrieval benchmark suite (called MMR Bench) to evaluate the corresponding system and architecture designs. To embody diverse multimedia retrieval applications, we collect eight state-of-the-art multimedia retrieval algorithms which cover the whole retrieval stages, including feature extraction, feature matching, and spatial verification. To satisfy diverse evaluation purposes, we implement multiple versions for each algorithm, including sequential version, pthread version for multi-core evaluation and data-parallel (i.e., Map-reduce) version for data-center evaluation. Moreover, MMR Bench provides flexible interfaces through retrieval stages, as well as a tool to adjust parameters and regenerating different scales of reasonable input. With such a flexible design, the algorithms in MMR Bench may be not only suitable for individual kernel-level evaluation, but also capable to be integrated into a complete infrastructure for system-level evaluation. Based on MMR Bench, we further analyze the inherent architectural characteristics, such as input size sensitivity and workload balance, which provides some insights into system and archite

关键词： Multimedia communication Feature extraction Benchmark testing Streaming media Algorithm design and analysis Computer architecture

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Single trial classification for mobile BCI a multiway kernel approach 8

Single trial classification for mobile BCI a multiway kernel...

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8th International Conference on Bio-Inspired Systems and Signal processing, BIOSIGNALS 2015

作者： Billiet, Lieven Hunyadi, Borbála Matic, Vladimir Van Huffel, Sabine Verleysen, Michel De Vos, Maarten STADIUS Center for Dynamical Systems Signal Processing and Data Analytics Department of Electrical Engineering KU Leuven Kasteelpark Arenberg 10 Leuven3001 Belgium Medical IT IMinds Leuven3001 Belgium Institute for Information and Communication Technologies Electronics and Applied Mathematics Université Catholique de Louvain Place du levant 3 Louvain-La-Neuve1348 Belgium Methods in Neurocognitive Psychology Lab Department of Psychology Cluster of Excellence Hearing4all Carl von Ossietzky University Oldenburg Germany Research Center Neurosensory Science Carl von Ossietzky University Oldenburg Germany

ISBN: (纸本)9789897580697

Subspace methods have been applied in various application fields to obtain robust results. Using multilinear algebra, they can also be applied on structured tensorial data. This work combines this principle with the power of non-linear kernels to investigate its merits in single trial classification for a mobile BCI ERP classification task. The accuracy difference with regard to more conventional vector kernels is evaluated for sitting and walking condition, increasing training data set and averaging over multiple trials. The study concludes that in general, the tensorial approach does not yield any advantage, though it might for specific subjects.

关键词： Vectors

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RIVER: Reconfigurable flow and fabric for real-time signal processing on FPGAs

RIVER: Reconfigurable flow and fabric for real-time signal p...

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作者： Brugger, Christian Hillenbrand, Dominic Balzer, Matthias Microelectronic Systems Design Research Group University of Kaiserslautern Germany Green Computing Systems Research and Development Center Department of Computer Science and Engineering Waseda University Tokyo Japan Institute for Data Processing and Electronics Karlsruhe Institute of Technology Germany

For high-performance embedded hard-real-time systems, ASICs and FPGAs hold advantages over generalpurpose processors and graphics accelerators (GPUs). However, developing signal processing architectures from scratch requires significant resources. Our design methodology is based on sets of configurable building blocks that provide storage, dataflow, computation, and control. Based on our building blocks, we generate hundreds of thousands of our dynamic streaming engine processors that we call DSEs. We store our DSEs in a repository that can be queried for (online) design space exploration. From this repository, DSEs can be downloaded and instantiated within milliseconds on FPGAs. If a loss of flexibility can be tolerated then ASIC implementations are feasible as well. In this article we focus on FPGA implementations. Our DSEs vary in cores, computational lanes, bitwidths, power consumption, and frequency. To the best of our knowledge we are the first to propose online design space exploration based on repositories of precompiled cores that are assembled of common building blocks. For demonstration purposes we map algorithms for image processing and financial mathematics to DSEs and compare the performance to existing highly optimized signal and graphics accelerators. © 2014 ACM.

关键词： Field programmable gate arrays (FPGA)

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Current statement of electrochemotherapy in Bulgaria

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International Journal Bioautomation 2014年第1期18卷 31-44页

作者： Nikolova, Biliana Peycheva, Ekaterina Mudrov, Tsvetan Dobreva, Tatiana Matveev, Mikhail Tsoneva, Iana Electroinduced and Adhesive Properties Institute of Biophysics and Biomedical Engineering Bulgarian Academy of Sciences Acad. G. Bonchev Str. bl. 21 Sofia 1113 Bulgaria Department of Dermatology Specialized Hospital for Active Treatment of Oncology 6 Plovdivsko pole Str. Sofia Bulgaria Analysis and Processing of Biomedical Signals and Data Institute of Biophysics and Biomedical Engineering Bulgarian Academy of Sciences Acad. G. Bonchev Str. bl. 105 Sofia 1113 Bulgaria

Electrochemotherapy is one fast, easy, effective and safe method for treatment of patients with clinical and cytological diagnosis of skin tumors as Carcinoma basocellulare, Carcinoma spinocellulare, Kaposi sarkoma and Mycosis fungoides in stage I (T1N0M0). Therapy is based on the temporary formation of pores on the surface of the cell membrane, resulting from the application of electric field with appropriate intensity and duration trough which the cytostatic drug as bleomycin is introduced into the tumor cells. This work presents data on the last version of electroporator and the treated patients by the method electrochemotherapy recently.

关键词： Patient treatment

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