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International Conference on Fuzzy Systems and Knowledge Discovery (FSKD)

作者： Xuemin Yang Zhihong Gao Yongmin Li Chuandi Pan Ronggen Yang Lejun Gong Geng Yang Jiangsu Key Laboratory of Big Data Security &Intelligent Processing Nanjing University of Posts and Telecommunications Nanjing China Zhejiang Engineering Research Center of Intelligence Medicine Wenzhou China Faculty Intelligent Science and Control Engineering Jinling Institute of Technology Nanjing China

ISBN: (纸本)9781538680988;9781538680971

Bio-medical entity recognition extracts significant entities, for instance cells, proteins and genes, which is an arduous task in an automatic system that mine knowledge in bioinformatics texts. In this thesis, we utilized a bidirectional long short-term memory (Bi-LSTM) combined with conditional random fields (CRFs) approach to automatically obtain word representation, obliterated the need for a marvelous number of feature engineering tasks. The consequences of this experiment represent the word representation method can effectually acquire potential semantic information. Without relying on any artificial features, the result on the test dataset obtained 76.81 % F-score. Therefore, the proposed method is expected to advance biomedical text mining in bioinformatics entity recognition.

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Author Correction: BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets

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Nature methods 2024年第10期21卷 1959页

作者： Linus Manubens-Gil Zhi Zhou Hanbo Chen Arvind Ramanathan Xiaoxiao Liu Yufeng Liu Alessandro Bria Todd Gillette Zongcai Ruan Jian Yang Miroslav Radojević Ting Zhao Li Cheng Lei Qu Siqi Liu Kristofer E Bouchard Lin Gu Weidong Cai Shuiwang Ji Badrinath Roysam Ching-Wei Wang Hongchuan Yu Amos Sironi Daniel Maxim Iascone Jie Zhou Erhan Bas Eduardo Conde-Sousa Paulo Aguiar Xiang Li Yujie Li Sumit Nanda Yuan Wang Leila Muresan Pascal Fua Bing Ye Hai-Yan He Jochen F Staiger Manuel Peter Daniel N Cox Michel Simonneau Marcel Oberlaender Gregory Jefferis Kei Ito Paloma Gonzalez-Bellido Jinhyun Kim Edwin Rubel Hollis T Cline Hongkui Zeng Aljoscha Nern Ann-Shyn Chiang Jianhua Yao Jane Roskams Rick Livesey Janine Stevens Tianming Liu Chinh Dang Yike Guo Ning Zhong Georgia Tourassi Sean Hill Michael Hawrylycz Christof Koch Erik Meijering Giorgio A Ascoli Hanchuan Peng Institute for Brain and Intelligence Southeast University Nanjing China. Microsoft Corporation Redmond WA USA. Tencent AI Lab Bellevue WA USA. Computing Environment and Life Sciences Directorate Argonne National Laboratory Lemont IL USA. Kaya Medical Seattle WA USA. University of Cassino and Southern Lazio Cassino Italy. Center for Neural Informatics Structures and Plasticity Krasnow Institute for Advanced Study George Mason University Fairfax VA USA. Faculty of Information Technology Beijing University of Technology Beijing China. Beijing International Collaboration Base on Brain Informatics and Wisdom Services Beijing China. Nuctech Netherlands Rotterdam the Netherlands. Janelia Research Campus Howard Hughes Medical Institute Ashburn VA USA. Department of Electrical and Computer Engineering University of Alberta Edmonton Alberta Canada. Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing Anhui University Hefei China. Paige AI New York NY USA. Scientific Data Division and Biological Systems and Engineering Division Lawrence Berkeley National Lab Berkeley CA USA. Helen Wills Neuroscience Institute and Redwood Center for Theoretical Neuroscience UC Berkeley Berkeley CA USA. RIKEN AIP Tokyo Japan. Research Center for Advanced Science and Technology (RCAST) The University of Tokyo Tokyo Japan. School of Computer Science University of Sydney Sydney New South Wales Australia. Texas A&M University College Station TX USA. Cullen College of Engineering University of Houston Houston TX USA. Graduate Institute of Biomedical Engineering National Taiwan University of Science and Technology Taipei Taiwan. National Centre for Computer Animation Bournemouth University Poole UK. PROPHESEE Paris France. Department of Neuroscience Columbia University New York NY USA. Mortimer B. Zuckerman Mind Brain Behavior Institute Columbia University New York NY USA. Department of Computer Science Northern Illinois Universit

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Fully Automated and Standardized Segmentation of Adipose Tissue Compartments by Deep Learning in Three-dimensional Whole-body MRI of Epidemiological Cohort Studies

arXiv

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arXiv 2020年

作者： Küstner, Thomas Hepp, Tobias Fischer, Marc Schwartz, Martin Fritsche, Andreas Häring, Hans-Ulrich Nikolaou, Konstantin Bamberg, Fabian Yang, Bin Schick, Fritz Gatidis, Sergios Machann, Jürgen University Hospital Tübingen Diagnostic and Interventional Radiology Medical Image and Data Analysis Tübingen Germany University of Stuttgart Department for Signal Processing and System Theory Stuttgart Germany School of Biomedical Engineering & Imaging Sciences King’s College London St. Thomas’ Hospital London United Kingdom Max-Planck Institute for Intelligent Systems Empirical Inference Department Tübingen Germany University Hospital Tübingen Diagnostic and Interventional Radiology Section on Experimental Radiology Tübingen Germany Department of Internal Medicine IV Eberhard Karls University Tübingen Germany Helmholtz Zentrum München University of Tübingen Tübingen Germany Germany Department of Diagnostic and Interventional Radiology Medical Center – University of Freiburg Faculty of Medicine University of Freiburg Germany

Purpose: To enable fast and reliable assessment of subcutaneous and visceral adipose tissue compartments derived from whole-body MRI. Methods: Quantification and localization of different adipose tissue compartments from whole-body MR images is of high interest to examine metabolic conditions. For correct identification and phenotyping of individuals at increased risk for metabolic diseases, a reliable automatic segmentation of adipose tissue into subcutaneous and visceral adipose tissue is required. In this work we propose a 3D convolutional neural network (DCNet) to provide a robust and objective segmentation. In this retrospective study, we collected 1000 cases (66±13 years;523 women) from the Tuebingen Family Study and from the German Center for Diabetes research (TUEF/DZD), as well as 300 cases (53±11 years;152 women) from the German National Cohort (NAKO) database for model training, validation, and testing with a transfer learning between the cohorts. These datasets had variable imaging sequences, imaging contrasts, receiver coil arrangements, scanners and imaging field strengths. The proposed DCNet was compared against a comparable 3D UNet segmentation in terms of sensitivity, specificity, precision, accuracy, and Dice overlap. Results: Fast (5-7seconds) and reliable adipose tissue segmentation can be obtained with high Dice overlap (0.94), sensitivity (96.6%), specificity (95.1%), precision (92.1%) and accuracy (98.4%) from 3D whole-body MR datasets (field of view coverage 450x450x2000mm3). Segmentation masks and adipose tissue profiles are automatically reported back to the referring physician. Conclusion: Automatic adipose tissue segmentation is feasible in 3D whole-body MR data sets and is generalizable to different epidemiological cohort studies with the proposed DCNet. Copyright © 2020, The Authors. All rights reserved.

关键词： Magnetic resonance imaging

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Evidence of Minijet Emission in a Large Emission Zone from a Magnetically Dominated Gamma-Ray Burst Jet

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Astrophysical Journal 2025年第2期985卷 239-239页

作者： Yi, S.-X. Wang, C.-W. Shao, X. Moradi, R. Gao, H. Zhang, B. Xiong, S.-L. Zhang, S.-N. Tan, W.-J. Liu, J.-C. Xue, W.-C. Zhang, Y.-Q. Zheng, C. Wang, Y. Zhang, P. An, Z.-H. Cai, C. Feng, P.-Y. Gong, K. Guo, D.-Y. Huang, Y. Li, B. Li, X.-B. Li, X.-Q. Liu, X.-J. Liu, Y.-Q. Ma, X. Peng, W.-X. Qiao, R. Song, L.-M. Wang, J. Wang, P. Wang, Y. Wen, X.-Y. Xiao, S. Xu, Y.-B. Yang, S. Yi, Q.-B. Zhang, D.-L. Zhang, F. Zhang, H.-M. Zhang, J.-P. Zhang, Z. Zhao, X.-Y. Zhao, Y. Zheng, S.-J. Key Laboratory of Particle Astrophysics Institute of High Energy Physics Chinese Academy of Sciences Beijing 100049 China University of Chinese Academy of Sciences Chinese Academy of Sciences Beijing 100049 China Department of Astronomy Beijing Normal University Beijing 100875 China Nevada Center for Astrophysics University of Nevada Las Vegas 89154 NV United States Department of Physics and Astronomy University of Nevada Las Vegas 89154 NV United States ICRANet Piazza della Repubblica 10 Pescara I-65122 Italy ICRA Dipartamento di Fisica Sapienza Università di Roma Piazzale Aldo Moro 5 Rome I-00185 Italy INAF Osservatorio Astronomico d’Abruzzo Via M. Maggini snc Teramo I-64100 Italy College of Electronic and Information Engineering Tongji University Shanghai 201804 China College of Physics Hebei Key Laboratory of Photophysics Research and Application Hebei Normal University Hebei Shijiazhuang 050024 China Guizhou Provincial Key Laboratory of Radio Astronomy and Data Processing Guizhou Normal University Guiyang 550001 China School of Physics and Optoelectronics Xiangtan University Yuhu District Xiangtan Hunan 411105 China School of Computer and Information Dezhou University Dezhou 253023 China

The second brightest gamma-ray burst (GRB) in history, GRB 230307A, provides an ideal laboratory to study the mechanism of GRB prompt emission thanks to its extraordinarily high photon statistics and its single-episode activity. Here we demonstrate that the rapidly variable components of its prompt emission compose an overall broad single pulse-like profile. Although these individual rapid components are aligned in time across all energy bands, this overall profile conspires to show a well-defined energy-dependent behavior that is typically seen in single GRB pulses. Such a feature demonstrates that the prompt emission of this burst is from many individual emitting units that are casually linked in a emission site at a large distance from the central engine. Such a scenario is in natural consistency with the internal-collision-induced magnetic reconnection and turbulence framework, which invokes many minijets due to local magnetic reconnection that constantly appear and disappear in a global magnetically dominated jet. © 2025. The Author(s). Published by the American Astronomical Society.

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Neutrinoless double beta decay sensitivity of the XLZD rare event observatory

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Journal of Physics G: Nuclear and Particle Physics 2025年第4期52卷 045102-045102页

作者： Aalbers, J. Abe, K. Adrover, M. Ahmed Maouloud, S. Akerib, D.S. Al Musalhi, A.K. Alder, F. Althueser, L. Amaral, D.W.P. Amarasinghe, C.S. Ames, A. Andrieu, B. Angelides, N. Angelino, E. Antunovic, B. Aprile, E. Araújo, H.M. Armstrong, J.E. Arthurs, M. Babicz, M. Baker, A. Balzer, M. Bang, J. Barberio, E. Bargemann, J.W. Barillier, E. Basharina-Freshville, A. Baudis, L. Bauer, D. Bazyk, M. Beattie, K. Beaupere, N. Bell, N.F. Bellagamba, L. Benson, T. Bhatti, A. Biesiadzinski, T.P. Biondi, R. Biondi, Y. Birch, H.J. Bishop, E. Bismark, A. Boehm, C. Boese, K. Bolotnikov, A. Brás, P. Braun, R. Breskin, A. Brew, C.A.J. Brommer, S. Brown, A. Bruni, G. Budnik, R. Burdin, S. Cai, C. Capelli, C. Carini, G. Carmona-Benitez, M.C. Carter, M. Chauvin, A. Chawla, A. Chen, H. Cherwinka, J.J. Chin, Y.T. Chott, N.I. Cimental Chavez, A.P. Clark, K. Colijn, A.P. Colling, D.J. Conrad, J. Converse, M.V. Coronel, R. Costanzo, D. Cottle, A. Cox, G. Cuenca-García, J.J. Curran, D. Cussans, D. D’Andrea, V. Daniel Garcia, L.C. Darlington, I. Dave, S. David, A. Davies, G.J. Decowski, M.P. Deisting, A. Delgaudio, J. Dey, S. Di Donato, C. Di Felice, L. Di Gangi, P. Diglio, S. Ding, C. Dobson, J.E.Y. Doerenkamp, M. Drexlin, G. Druszkiewicz, E. Dunbar, C.L. Eitel, K. Elykov, A. Engel, R. Eriksen, S.R. Fayer, S. Fearon, N.M. Ferella, A.D. Ferrari, C. Fieldhouse, N. Fischer, H. Flaecher, H. Flehmke, T. Flierman, M. Fraser, E.D. Fruth, T.M.A. Fujikawa, K. Fulgione, W. Fuselli, C. Gaemers, P. Gaior, R. Gaitskell, R.J. Gallice, N. Galloway, M. Gao, F. Garroum, N. Geffre, A. Genovesi, J. Ghag, C. Ghosh, S. Giacomobono, R. Gibbons, R. Girard, F. Glade-Beucke, R. Glück, F. Gokhale, S. Grandi, L. Green, J. Grigat, J. van der Grinten, M.G.D. Größle, R. Guan, H. Guida, M. Gyorgy, P. Haiston, J.J. Hall, C.R. Hall, T. Hammann, R. Hannen, V. Hansmann-Menzemer, S. Hargittai, N. Hartigan-O’Connor, E. Haselschwardt, S.J. Hernandez, M. Hertel, S.A. Higuera, A. Hils, C. Hiraoka, K. Hoetzsch, L. Hoferichter, M. Homenides, G.J. Hood, N.F. Horn, M. Huang, D.Q. Hughes Nikhef the University of Groningen Van Swinderen Institute Groningen 9747AG Netherlands Kamioka Observatory Institute for Cosmic Ray Research Kavli Institute for the Physics and Mathematics of the Universe (WPI) University of Tokyo Higashi-Mozumi Kamioka Hida Gifu 506-1205 Japan Physik-Institut University of Zürich Zürich 8057 Switzerland LPNHE Sorbonne Université CNRS IN2P3 Paris 75005 France SLAC National Accelerator Laboratory Menlo Park 94025-7015 CA United States Kavli Institute for Particle Astrophysics and Cosmology Stanford University Stanford 94305-4085 CA United States Department of Physics and Astronomy University College London (UCL) London WC1E 6BT United Kingdom Institute for Nuclear Physics University of Münster Münster 48149 Germany Department of Physics and Astronomy Rice University Houston 77005 TX United States Department of Physics University of California Santa Barbara Santa Barbara 93106-9530 CA United States Department of Physics Imperial College London Blackett Laboratory London SW7 2AZ United Kingdom INAF-Astrophysical Observatory of Torino Department of Physics University of Torino INFN-Torino Torino 10125 Italy INFN-Laboratori Nazionali del Gran Sasso Gran Sasso Science Institute L’Aquila 67100 Italy Vinca Institute of Nuclear Science University of Belgrade Mihajla Petrovica Alasa 12-14 Belgrade Serbia Physics Department Columbia University New York 10027 NY United States Department of Physics University of Maryl College Park 20742-4111 MD United States Department of Physics King’s College London London WC2R 2LS United Kingdom Institute for Data Processing and Electronics Karlsruhe Institute of Technology Karlsruhe 76021 Germany Department of Physics Brown University Providence 02912-9037 RI United States ARC Centre of Excellence for Dark Matter Particle Physics School of Physics The University of Melbourne 3010 VIC Australia SUBATECH IMT Atlantique CNRS IN2P3 Nantes Université Nantes

The XLZD collaboration is developing a two-phase xenon time projection chamber with an active mass of 60-80 t capable of probing the remaining weakly interacting massive particle-nucleon interaction parameter space down to the so-called neutrino fog. In this work we show that, based on the performance of currently operating detectors using the same technology and a realistic reduction of radioactivity in detector materials, such an experiment will also be able to competitively search for neutrinoless double beta decay in ¹³⁶Xe using a natural-abundance xenon target. XLZD can reach a 3σ discovery potential half-life of 5.7 × 10²⁷ years (and a 90% CL exclusion of 1.3 × 10²⁸ years) with 10 years of data taking, corresponding to a Majorana mass range of 7.3-31.3 meV (4.8-20.5 meV). XLZD will thus exclude the inverted neutrino mass ordering parameter space and will start to probe the normal ordering region for most of the nuclear matrix elements commonly considered by the community. © 2025 The Author(s). Published by IOP Publishing Ltd.

关键词： 2-phase xenon TPCs neutrino mass hierarchy neutrinoless double beta decay rare event observatory Xe-136

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State preparation of a fluxonium qubit with feedback from a custom FPGA-based platform

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AIP Conference Proceedings 2020年第1期2241卷

作者： Richard Gebauer Nick Karcher Daria Gusenkova Martin Spiecker Lukas Grünhaupt Ivan Takmakov Patrick Winkel Luca Planat Nicolas Roch Wolfgang Wernsdorfer Alexey V. Ustinov Marc Weber Martin Weides Ioan M. Pop Oliver Sander 1)Institute for Data Processing and Electronics Karlsruhe Institute of Technology 76131 Karlsruhe Germany 2)Physikalisches Institut Karlsruhe Institute of Technology 76131 Karlsruhe Germany 3)Institute of Nanotechnology Karlsruhe Institute of Technology 76344 Eggenstein-Leopoldshafen Germany 4)Russian Quantum Center National University of Science and Technology MISIS Moscow 119049 Russia 5)Université Grenoble Alpes CNRS Grenoble INP Institut Néel 38000 Grenoble France 6)James Watt School of Engineering University of Glasgow Glasgow G12 8LT United Kingdom

We developed a versatile integrated control and readout instrument for experiments with superconducting quantum bits (qubits), based on a field-programmable gate array (FPGA) platform. Using this platform, we perform measurement-based, closed-loop feedback operations with 428 ns platform latency. The feedback capability is instrumental in realizing active reset initialization of the qubit into the ground state in a time much shorter than its energy relaxation time T1. We show experimental results demonstrating reset of a fluxonium qubit with 99.4 % fidelity, using a readout-and-drive pulse sequence approximately 1. 5 µs long. Compared to passive ground state initialization through thermalization, with the time constant given by T1 = 80 µs, the use of the FPGA-based platform allows us to improve both the fidelity and the time of the qubit initialization by an order of magnitude.

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Peter H. Rose - Father of Ion Implantation: The Early Years

Peter H. Rose - Father of Ion Implantation: The Early Years

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International Conference on Ion Implantation Technology (IIT)

作者： Andrew Wittkower Geoffrey Ryding ESAT/STADIUS Center for Dynamical Systems Signal Processing and Data Analytics KU Leuven Leuven Belgium State Key Laboratory of Scientific and Engineering Computing Institute of Computational Mathematics and Scientific/Engineering Computing Academy of Mathematics and Systems Science Chinese Academy of Sciences Beijing China

In 1996, President Clinton presented Peter Rose with the National Medal of Technology and Innovation. This paper describes his innovations in ion implantation technology which led to the award presented twenty years l... 详细信息

ISBN: (纸本)9781538668306

关键词： Ion implantation Ion sources Business Technological innovation Acceleration Particle beams

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High-Performance Thermoelectric α-Ag9Ga1−xTe6Compounds with Ultralow Lattice Thermal Conductivity Originating from Ag9Te2Motifs

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Angewandte Chemie 2022年第36期134卷

作者： Yingfei Tang Yimeng Yu Na Zhao Keke Liu Haijie Chen Constantinos C. Stoumpos Yixuan Shi Shuo Chen Lingxiao Yu Jinsong Wu Qingjie Zhang Xianli Su Xinfeng Tang State Key Laboratory of Advanced Technology for Materials Synthesis and Processing Wuhan University of Technology Wuhan 430070 China International School of Materials Science and Engineering Wuhan University of Technology Wuhan 430070 China Contribution: Conceptualization (equal) Data curation (lead) Formal analysis (lead) Investigation (equal) Methodology (equal) Visualization (equal) Writing - original draft (lead) Nanostructure Research Center Wuhan University of Technology Wuhan 430070 China Contribution: Data curation (equal) Software (equal) Visualization (supporting) Contribution: Investigation (equal) Methodology (equal) Contribution: Investigation (equal) Methodology (equal) Visualization (equal) State Key Laboratory for Modification of Chemical Fibers and Polymer Materials Institute of Functional Materials College of Materials Science and Engineering Donghua University Shanghai 201620 China Contribution: Methodology (equal) Visualization (equal) Writing - review & editing (equal) Department of Materials Science and Technology Voutes Campus University of Crete Iraklio Heraklion 70013 Greece Contribution: Methodology (equal) Visualization (equal) Contribution: Investigation (equal) Visualization (equal) Contribution: Conceptualization (equal) Investigation (equal) Contribution: Methodology (equal) Contribution: Conceptualization (equal) Methodology (equal) Contribution: Conceptualization (equal) Investigation (equal) Methodology (equal) Writing - review & editing (equal) Contribution: Conceptualization (equal) Funding acquisition (lead) Methodology (equal) Supervision (equal) Writing - review & editing (equal)

We have determined the complex atomic structure of high-temperature α-Ag 9 GaTe 6 phase with a hexagonal lattice ( P 6 3 mc space group, a = b =8.2766 Å, c =13.4349 Å). The structure has outer [GaTe 4 ] 5− tetrahedrons and inner [Ag 9 Te 2 ] 5+ clusters. All of the Ag ions are disorderly distributed in the lattice. Seven types of the Ag atoms constitute the cage-like [Ag 9 Te 2 ] 5+ clusters. The highly disordered Ag ions vibrate in-harmonically, producing strong coupling between low frequency optical phonons and acoustic phonons. This in conjunction with a low sound velocity of 1354 m s −1 leads to an ultralow thermal conductivity of 0.20 W m −1 K −1 at 673 K. Meanwhile, the deficiency of Ga in Ag 9 Ga 1− x Te 6 compounds effectively optimizes the electronic transport properties. Ag 9 Ga 0.91 Te 6 attains a highest power factor of 0.40 mW m −1 K −2 at 673 K. All these contribute to a much-improved ZT value of 1.13 at 623 K for Ag 9 Ga 0.95 Te 6 , which is 41 % higher than that of the pristine Ag 9 GaTe 6 sample.

关键词： α-Ag9GaTe6 Crystal Structure Ga Deficiency Thermoelectrics Ultralow Lattice Thermal Conductivity

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DPHL:A DIA Pan-human Protein Mass Spectrometry Library for Robust Biomarker Discovery

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Genomics, Proteomics & Bioinformatics 2020年第2期18卷 104-119页

作者： Tiansheng Zhu Yi Zhu Yue Xuan Huanhuan Gao Xue Cai Sander R.Piersma Thang V.Pham Tim Schelfhorst Richard R.G.D.Haas Irene V.Bijnsdorp Rui Sun Liang Yue Guan Ruan Qiushi Zhang Mo Hu Yue Zhou Winan J.Van Houdt Tessa Y.S.Le Large Jacqueline Cloos Anna Wojtuszkiewicz Danijela Koppers-Lalic Franziska Bottger Chantal Scheepbouwer Ruud H.Brakenhoff Geert J.L.H.van Leenders Jan N.M.Ijzermans John W.M.Martens Renske D.M.Steenbergen Nicole C.Grieken Sathiyamoorthy Selvarajan Sangeeta Mantoo Sze S.Lee Serene J.Y.Yeow Syed M.F.Alkaff Nan Xiang Yaoting Sun Xiao Yi Shaozheng Dai Wei Liu Tian Lu Zhicheng Wu Xiao Liang Man Wang Yingkuan Shao Xi Zheng Kailun Xu Qin Yang Yifan Meng Cong Lu Jiang Zhu Jin'e Zheng Bo Wang Sai Lou Yibei Dai Chao Xu Chenhuan Yu Huazhong Ying Tony K.Lim Jianmin Wu Xiaofei Gao Zhongzhi Luan Xiaodong Teng Peng Wu Shi'ang Huang Zhihua Tao Narayanan G.Iyer Shuigeng Zhou Wenguang Shao Henry Lam Ding Ma Jiafu Ji Oi L.Kon Shu Zheng Ruedi Aebersold Connie R.Jimenez Tiannan Guo Zhejiang Provincial Laboratory of Life Sciences and Biomedicine Westlake UniversityHangzhou 310024China Key Laboratory of Structural Biology of Zhejiang Province School of Life SciencesWestlake UniversityHangzhou 310024China Institute of Basic Medical Sciences Westlake Institute for Advanced StudyHangzhou 310024China School of Computer Science Shanghai Key Laboratory of Intelligent Information ProcessingFudan UniversityShanghai 200433China Thermo Fisher Scientific(BREMEN)GmbH Bremen 28195Germany OncoProteomics Laboratory Department of Medical OncologyVU University Medical CenterVU UniversityAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamUrologyCancer Center AmsterdamAmsterdam 1011The Netherlands Thermo Fisher Scientific Shanghai 201206China The Netherlands Cancer Institute Surgical OncologyAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamSurgeryCancer Center AmsterdamAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamPediatric Oncology/HematologyCancer Center AmsterdamAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamHematologyCancer Center AmsterdamAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamMedical OncologyCancer Center AmsterdamAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamNeurosurgeryCancer Center AmsterdamAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamPathologyCancer Center AmsterdamAmsterdam 1011The Netherlands Amsterdam UMC Vrije Universiteit AmsterdamOtolaryngology/Head and Neck SurgeryCancer Center AmsterdamAmsterdam 1011The Netherlands Erasmus MC University Medical Center PathologyRotterdam 1016LVThe Netherlands Erasmus MC University Medical Center SurgeryRotterdam 1016LVThe Netherlands Erasmus MC University Medical Center Medical OncologyRotterdam 1016LVThe Netherlands Department of Anatomical Pathology Singapore General HospitalSingapore 169608Singapore Division of Medical Scie

To address the increasing need for detecting and validating protein biomarkers in clinical specimens,mass spectrometry(MS)-based targeted proteomic techniques,including the selected reaction monitoring(SRM),parallel reaction monitoring(PRM),and massively parallel dataindependent acquisition(DIA),have been *** optimal performance,they require the fragment ion spectra of targeted peptides as prior *** this report,we describe a MS pipeline and spectral resource to support targeted proteomics studies for human tissue *** build the spectral resource,we integrated common open-source MS computational tools to assemble a freely accessible computational workflow based on *** then applied the workflow to generate DPHL,a comprehensive DIA pan-human library,from 1096 data-dependent acquisition(DDA)MS raw files for 16 types of cancer *** extensive spectral resource was then applied to a proteomic study of 17 prostate cancer(PCa)***,PRM validation was applied to a larger study of 57 PCa patients and the differential expression of three proteins in prostate tumor was *** a second application,the DPHL spectral resource was applied to a study consisting of plasma samples from 19 diffuse large B cell lymphoma(DLBCL)patients and 18 healthy control *** expressed proteins between DLBCL patients and healthy control subjects were detected by DIA-MS and confirmed by *** data demonstrate that the DPHL supports DIA and PRM MS pipelines for robust protein biomarker *** is freely accessible at https://***/page/***?id=IPX0001400000.

关键词： data-independent acquisition Parallel reaction monitoring Spectral library Prostate cancer Diffuse large B cell lymphoma

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Evaluation of planar silicon pixel sensors with the RD53A readout chip for the Phase-2 Upgrade of the CMS Inner Tracker

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Journal of Instrumentation 2023年第11期18卷 P11015页

作者： Adam, W. Bergauer, T. Damanakis, K. Dragicevic, M. Frühwirth, R. Steininger, H. Beaumont, W. Darwish, M.R. Janssen, T. Rejeb Sfar, H. Van Mechelen, P. Breugelmans, N. Delcourt, M. De Moor, A. D’Hondt, J. Heyen, F. Lowette, S. Makarenko, I. Muller, D. Sahasransu, A.R. Vannerom, D. Van Putte, S. Allard, Y. Clerbaux, B. Dansana, S. De Lentdecker, G. Evard, H. Favart, L. Hohov, D. Khalilzadeh, A. Lee, K. Mahdavikhorrami, M. Malara, A. Paredes, S. Postiau, N. Robert, F. Thomas, L. Vanden Bemden, M. Vanlaer, P. Yang, Y. Benecke, A. Bruno, G. Bury, F. Caputo, C. De Favereau, J. Delaere, C. Donertas, I.S. Giammanco, A. Jaffel, K. Jain, S. Lemaitre, V. Mondal, K. Szilasi, N. Tran, T.T. Wertz, S. Brigljević, V. Chitroda, B. Ferenček, D. Mishra, S. Starodumov, A. Šuša, T. Brücken, E. Lampén, T. Martikainen, L. Tuominen, E. Karadzhinova-Ferrer, A. Luukka, P. Petrow, H. Tuuva, T. Agram, J.-L. Andrea, J. Apparu, D. Bloch, D. Bonnin, C. Brom, J.-M. Chabert, E. Charles, L. Collard, C. Dangelser, E. Falke, S. Goerlach, U. Gross, L. Haas, C. Krauth, M. Ollivier-Henry, N. Baulieu, G. Bonnevaux, A. Boudoul, G. Caponetto, L. Chanon, N. Contardo, D. Dupasquier, T. Galbit, G. Marchisone, M. Mirabito, L. Nodari, B. Schibler, E. Schirra, F. Vander Donckt, M. Viret, S. Botta, V. Ebisch, C. Feld, L. Karpinski, W. Klein, K. Lipinski, M. Louis, D. Meuser, D. Özen, I. Pauls, A. Pierschel, G. Röwert, N. Teroerde, M. Wlochal, M. Dziwok, C. Fluegge, G. Pooth, O. Stahl, A. Ziemons, T. Agah, A. Bhattacharya, S. Blekman, F. Campbell, A. Cardini, A. Cheng, C. Consuegra Rodriguez, S. Eckerlin, G. Eckstein, D. Gallo, E. Guthoff, M. Kleinwort, C. Mankel, R. Maser, H. Muhl, C. Mussgiller, A. Nürnberg, A. Otarid, Y. Perez Adan, D. Petersen, H. Pitzl, D. Rastorguev, D. Reichelt, O. Schütze, P. Sreelatha Pramod, L. Stever, R. Velyka, A. Ventura Barroso, A. Walsh, R. Zuber, A. Albrecht, A. Antonello, M. Biskop, H. Buhmann, P. Connor, P. Feindt, F. Garutti, E. Institut für Hochenergiephysik Wien Austria Universiteit Antwerpen Antwerpen Belgium Vrije Universiteit Brussel Brussel Belgium Université Libre de Bruxelles Bruxelles Belgium Université Catholique de Louvain Louvain-la-Neuve Belgium Institut Ruđer Bošković Zagreb Croatia Department of Physics University of Helsinki Helsinki Finland Helsinki Institute of Physics Helsinki Finland Lappeenranta-Lahti University of Technology Lappeenranta Finland Université de Strasbourg CNRS IPHC UMR 7178 Strasbourg France Université de Lyon Université Claude Bernard Lyon 1 CNRS IN2P3 IP2I Lyon UMR 5822 Villeurbanne France RWTH Aachen University I. Physikalisches Institut Aachen Germany RWTH Aachen University III. Physikalisches Institut B Aachen Germany Deutsches Elektronen-Synchrotron Hamburg Germany University of Hamburg Hamburg Germany Institut für Experimentelle Teilchenphysik KIT Karlsruhe Germany NCSR Demokritos Aghia Paraskevi Greece Wigner Research Centre for Physics Budapest Hungary National Institute of Science Education and Research HBNI Bhubaneswar India University of Delhi Delhi India Saha Institute of Nuclear Physics HBNI Kolkata India Indian Institute of Technology Madras Madras India INFN Sezione di Bari Bari Italy Università di Bari Bari Italy Politecnico di Bari Bari Italy INFN Sezione di Catania Catania Italy Università di Catania Catania Italy INFN Sezione di Firenze Firenze Italy Università di Firenze Firenze Italy INFN Sezione di Genova Genova Italy INFN Sezione di Milano-Bicocca Milano Italy Università di Milano-Bicocca Milano Italy INFN Sezione di Padova Padova Italy Università di Padova Padova Italy INFN Sezione di Pavia Pavia Italy Università di Bergamo Pavia Italy Bergamo Università di Pavia Pavia Italy INFN Sezione di Perugia Perugia Italy Università di Perugia Perugia Italy CNR-IOM Perugia Perugia Italy INFN Sezione di Pisa Siena Italy Università di Pisa Siena Italy Scuola Normale Superiore di Pisa Sien

The Large Hadron Collider at CERN will undergo an upgrade in order to increase its luminosity to 7.5 × 1034 cm-2s-1. The increased luminosity during this High-Luminosity running phase, starting around 2029, means a higher rate of proton-proton interactions, hence a larger ionizing dose and particle fluence for the detectors. The current tracking system of the CMS experiment will be fully replaced in order to cope with the new operating conditions. Prototype planar pixel sensors for the CMS Inner Tracker with square 50 μm × 50 μm and rectangular 100 μm × 25 μm pixels read out by the RD53A chip were characterized in the lab and at the DESY-II testbeam facility in order to identify designs that meet the requirements of CMS during the High-Luminosity running phase. A spatial resolution of approximately 3.4 μm (2 μm) is obtained using the modules with 50 μm×50 μm (100 μm × 25 μm) pixels at the optimal angle of incidence before irradiation. After irradiation to a 1MeV neutron equivalent fluence of Φeq = 5.3 × 1015 cm-2, a resolution of 9.4 μm is achieved at a bias voltage of 800V using a module with 50 μm × 50 μm pixel size. All modules retain a hit efficiency in excess of 99% after irradiation to fluences up to 2.1 × 1016 cm-2. Further studies of the electrical properties of the modules, especially crosstalk, are also presented in this paper. © 2023 institute of Physics Publishing. All rights reserved.

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