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25th International Joint Conference on Artificial Intelligence, IJCAI 2016

作者： Hashemi, Homa B. Hwa, Rebecca Intelligent Systems Program Computer Science Department University of Pittsburgh United States

Ungrammatical sentences present challenges for statistical parsers because the well-formed trees they produce may not be appropriate for these sentences. We introduce a framework for reviewing the parses of ungrammatical sentences and extracting the coherent parts whose syntactic analyses make sense. We call this task parse tree fragmentation. In this paper, we propose a training methodology for fragmenting parse trees without using a task-specific annotated corpus. We also propose some fragmentation strategies and compare their performance on an extrinsic task - fluency judgments in two domains: English-as-a-Second Language (ESL) and machine translation (MT). Experimental results show that the proposed fragmentation strategies are competitive with existing methods for making fluency judgments;they also suggest that the overall framework is a promising way to handle syntactically unusual sentences.

关键词： Syntactics

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An evaluation of parser robustness for ungrammatical sentences

An evaluation of parser robustness for ungrammatical sentenc...

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2016 Conference on Empirical Methods in Natural Language Processing, EMNLP 2016

作者： Hashemi, Homa B. Hwa, Rebecca Intelligent Systems Program University of Pittsburgh United States Computer Science Department University of Pittsburgh United States

ISBN: (纸本)9781945626258

For many NLP applications that require a parser, the sentences of interest may not be well-formed. If the parser can overlook problems such as grammar mistakes and produce a parse tree that closely resembles the correct analysis for the intended sentence, we say that the parser is robust. This paper compares the performances of eight state-of-the-art dependency parsers on two domains of ungrammatical sentences: learner English and machine translation outputs. We have developed an evaluation metric and conducted a suite of experiments. Our analyses may help practitioners to choose an appropriate parser for their tasks, and help developers to improve parser robustness against ungrammatical sentences. © 2016 Association for Computational Linguistics

关键词： Natural language processing systems

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Molybdenum Disulfide: Scalable Fabrication of Molybdenum Disulfide Nanostructures and their Assembly (Adv. Mater. 43/2020)

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Advanced Materials 2020年第43期32卷

作者： Yun Huang Kang Yu Huaizhi Li Kai Xu Zexi Liang Debora Walker Paulo Ferreira Peer Fischer Donglei (Emma) Fan Materials Science and Engineering Program Texas Materials Institute The University of Texas at Austin Austin TX 78712 USA The Department of Advanced Electron Microscopy Imaging and Spectroscopy International Iberian Nanotechnology Laboratory Braga 4715‐330 Portugal Electrical and Computer Engineering University of Illinois at Urbana‐Champaign Urbana IL 61801 USA School of Engineering and Applied Sciences Harvard University Cambridge MA 02138 USA Mechanical Engineering Department and IDMEC Instituto Superior Técnico University of Lisbon Av. Rovisco Pais Lisboa 1049‐001 Portugal Max‐Planck‐Institute for Intelligent Systems Heisenbergstr. 3 Stuttgart 70569 Germany Institute of Physical Chemistry University of Stuttgart Pfaffenwaldring 55 Stuttgart 70569 Germany Walker Department of Mechanical Engineering The University of Texas at Austin Austin TX 78712 USA

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The Brain Tumor Segmentation (BraTS) Challenge: Local Synthesis of Healthy Brain Tissue via Inpainting

arXiv

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arXiv 2023年

作者： Kofler, Florian Steinbauer, Felix Meissen, Felix Graf, Robert Ehrlich, Stefan K. Reinke, Annika Oswald, Eva Waldmannstetter, Diana Hoelzl, Florian Horvath, Izabela Turgut, Oezguen Shit, Suprosanna Bukas, Christina Yang, Kaiyuan Paetzold, Johannes C. de da Rosa, Ezequiel Mekki, Isra Vinayahalingam, Shankeeth Kassem, Hasan Zhang, Juexin Chen, Ke Weng, Ying Durrer, Alicia Cattin, Philippe C. Wolleb, Julia Sadique, M.S. Rahman, M.M. Farzana, W. Temtam, A. Iftekharuddin, K.M. Adewole, Maruf Anwar, Syed Muhammad Baid, Ujjwal Janas, Anastasia Kazerooni, Anahita Fathi LaBella, Dominic Bran Li, Hongwei Moawad, Ahmed W. Conte, Gian-Marco Farahani, Keyvan Eddy, James Sheller, Micah Pati, Sarthak Karagyris, Alexandros Aristizabal, Alejandro Bergquist, Timothy Chung, Verena Shinohara, Russell Takeshi Dako, Farouk Wiggins, Walter Reitman, Zachary Wang, Chunhao Liu, Xinyang Jiang, Zhifan Johanson, Elaine Meier, Zeke Familiar, Ariana Davatzikos, Christos Freymann, John Kirby, Justin Bilello, Michel Fathallah-Shaykh, Hassan M. Wiest, Roland Kirschke, Jan Colen, Rivka R. Kotrotsou, Aikaterini Lamontagne, Pamela Marcus, Daniel Milchenko, Mikhail Nazeri, Arash Weber, Marc-André Mahajan, Abhishek Mohan, Suyash Mongan, John Hess, Christopher Cha, Soonmee Villanueva-Meyer, Javier Colak, Errol Crivellaro, Priscila Jakab, Andras Fatade, Abiodun Omidiji, Olubukola Akinola Lagos, Rachel Olatunji, O.O. Khanna, Goldey Kirkpatrick, John Alonso-Basanta, Michelle Rashid, Arif Bornhorst, Miriam Nabavizadeh, Ali Lepore, Natasha Palmer, Joshua Porras, Antonio Albrecht, Jake Anazodo, Udunna Aboian, Mariam Calabrese, Evan Rudie, Jeffrey David Linguraru, Marius George Iglesias, Juan Eugenio Van Leemput, Koen Bakas, Spyridon Wiestler, Benedikt Ezhov, Ivan Piraud, Marie Menze, Bjoern H. Helmholtz AI Germany Technical University of Munich Germany Helmholtz Munich Germany Klinikum Rechts der Isar Munich Germany SETLabs Research GmbH Healthcare Technologies Munich Germany Heidelberg Division of Intelligent Medical Systems Germany Heidelberg HI Helmholtz Imaging Germany Institute of Clinical Neuroimmunology Faculty of Medicine Ludwig Maximilian University Munich Germany University of Zurich Switzerland Helmholtz Research Center Munich Germany Imperial College London United Kingdom Icometrix Leuven Belgium Department of Oral and Maxillofacial Surgery Radboudumc Netherlands Department of Artificial Intelligence Radboud University Netherlands MLCommons University of Nottingham Ningbo China Ningbo315100 China Center for medical Image Analysis and Navigation Department of Biomedical Engineering University of Basel Allschwil Switzerland Old Dominion University NorfolkVA23529 United States Lab Crestview Radiology Lagos Nigeria Children's National Hospital WashingtonDC United States George Washington University WashingtonDC United States University of Pennsylvania PhiladelphiaPA United States Department of Radiology Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Yale University New HavenCT United States Children's Hospital of Philadelphia University of Pennsylvania PhiladelphiaPA United States Duke University Medical Center Department of Radiation Oncology United States Athinoula A Martinos Center for Biomedical Imaging Massachusetts General Hospital BostonMA United States Department of Neuroradiology Technical University of Munich Munich Germany Mercy Catholic Medical Center DarbyPA United States Department of Radiology Mayo Clinic RochesterMN United States Cancer Imaging Program National Cancer Institute National Institutes of Health BethesdaMD20814 U

A myriad of algorithms for the automatic analysis of brain MR images is available to support clinicians in their decision-making. For brain tumor patients, the image acquisition time series typically starts with an already pathological scan. This poses problems, as many algorithms are designed to analyze healthy brains and provide no guarantee for images featuring lesions. Examples include but are not limited to algorithms for brain anatomy parcellation, tissue segmentation, and brain extraction. To solve this dilemma, we introduce the BraTS inpainting challenge. Here, the participants explore inpainting techniques to synthesize healthy brain scans from lesioned ones. The following manuscript contains the task formulation, dataset, and submission procedure. Later, it will be updated to summarize the findings of the challenge. The challenge is organized as part of the ASNR-BraTS MICCAI challenge. Copyright © 2023, The Authors. All rights reserved.

关键词： Magnetic resonance imaging

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Making large Cox's proportional hazard models tractable in Bayesian networks 8

Making large Cox's proportional hazard models tractable in B...

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8th International Conference on Probabilistic Graphical Models, PGM 2016

作者： Kraisangka, Jidapa Druzdzel, Marek J. Decision System Laboratory School of Information Sciences Intelligent Systems Program University of Pittsburgh PittsburghPA15260 United States Faculty of Computer Science Bialystok University of Technology Wiejska 45A Bialystok15-351 Poland

Cox's proportional hazard (CPH) model is a statistical technique that captures the interaction between a set of risk factors and an effect variable. While the CPH model is popular in survival analysis, Bayesian networks offer an attractive alternative that is intuitive, general, theoretically sound, and avoids CPH model's restrictive assumptions. Existing CPH models are a great source of existing knowledge that can be reused in Bayesian networks. The main problem with applying Bayesian networks to survival analysis is their exponential growth in complexity as the number of risk factors increases. It is not uncommon to see complex CPH models with as many as 20 risk factors. Our paper focuses on making large survival analysis models derived from the CPH model tractable in Bayesian networks. We evaluate the effect of two complexity reduction techniques: (1) parent divorcing, and (2) removing less important risk factors based on the accuracy of the resulting models. 2016 Microtome Publishing. All rights reserved.

关键词： Bayesian networks

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Author Correction: π-HuB: the proteomic navigator of the human body

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Nature 2025年第8046期637卷 E22页

作者： Fuchu He Ruedi Aebersold Mark S Baker Xiuwu Bian Xiaochen Bo Daniel W Chan Cheng Chang Luonan Chen Xiangmei Chen Yu-Ju Chen Heping Cheng Ben C Collins Fernando Corrales Jürgen Cox Weinan E Jennifer E Van Eyk Jia Fan Pouya Faridi Daniel Figeys George Fu Gao Wen Gao Zu-Hua Gao Keisuke Goda Wilson Wen Bin Goh Dongfeng Gu Changjiang Guo Tiannan Guo Yuezhong He Albert J R Heck Henning Hermjakob Tony Hunter Narayanan Gopalakrishna Iyer Ying Jiang Connie R Jimenez Lokesh Joshi Neil L Kelleher Ming Li Yang Li Qingsong Lin Cui Hua Liu Fan Liu Guang-Hui Liu Yansheng Liu Zhihua Liu Teck Yew Low Ben Lu Matthias Mann Anming Meng Robert L Moritz Edouard Nice Guang Ning Gilbert S Omenn Christopher M Overall Giuseppe Palmisano Yaojin Peng Charles Pineau Terence Chuen Wai Poon Anthony W Purcell Jie Qiao Roger R Reddel Phillip J Robinson Paola Roncada Chris Sander Jiahao Sha Erwei Song Sanjeeva Srivastava Aihua Sun Siu Kwan Sze Chao Tang Liujun Tang Ruijun Tian Juan Antonio Vizcaíno Chanjuan Wang Chen Wang Xiaowen Wang Xinxing Wang Yan Wang Tobias Weiss Mathias Wilhelm Robert Winkler Bernd Wollscheid Limsoon Wong Linhai Xie Wei Xie Tao Xu Tianhao Xu Liying Yan Jing Yang Xiao Yang John Yates Tao Yun Qiwei Zhai Bing Zhang Hui Zhang Lihua Zhang Lingqiang Zhang Pingwen Zhang Yukui Zhang Yu Zi Zheng Qing Zhong Yunping Zhu State Key Laboratory of Medical Proteomics Beijing Proteome Research Center National Center for Protein Sciences (Beijing) Beijing Institute of Lifeomics Beijing China. hefc@***. International Academy of Phronesis Medicine (Guangdong) Guangdong China. hefc@***. Department of Biology Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland. aebersold@imsb.biol.ethz.ch. Macquarie Medical School Macquarie University Sydney New South Wales Australia. Institute of Pathology and Southwest Cancer Center Southwest Hospital Third Military Medical University (Army Medical University) and Key Laboratory of Tumor Immunopathology Ministry of Education of China Chongqing China. Institute of Health Service and Transfusion Medicine Beijing China. Department of Pathology and The Sidney Kimmel Comprehensive Cancer Center Johns Hopkins University Baltimore MD USA. State Key Laboratory of Medical Proteomics Beijing Proteome Research Center National Center for Protein Sciences (Beijing) Beijing Institute of Lifeomics Beijing China. Key Laboratory of Systems Biology Center for Excellence in Molecular Cell Science Shanghai Institute of Biochemistry and Cell Biology Chinese Academy of Sciences Shanghai China. Department of Nephrology First Medical Center of Chinese PLA General Hospital Nephrology Institute of the Chinese People's Liberation Army State Key Laboratory of Kidney Diseases National Clinical Research Center for Kidney Diseases Beijing Key Laboratory of Kidney Disease Research Beijing China. Institute of Chemistry Academia Sinica Taipei China. National Biomedical Imaging Center State Key Laboratory of Membrane Biology Institute of Molecular Medicine Peking-Tsinghua Center for Life Sciences College of Future Technology Peking University Beijing China. School of Biological Sciences Queen's University of Belfast Belfast UK. Functional Proteomics Laboratory Centro Nacional de Biotecnología-CSIC Madrid Spain. Computational Systems Biochemistry Research Group Ma

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Joint prediction for entity/event-level sentiment analysis using Probabilistic Soft Logic models

Joint prediction for entity/event-level sentiment analysis u...

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Conference on Empirical Methods in Natural Language Processing, EMNLP 2015

作者： Deng, Lingjia Wiebe, Janyce Intelligent Systems Program University of Pittsburgh United States Intelligent Systems Program Department of Computer Science University of Pittsburgh United States

ISBN: (纸本)9781941643327

In this work, we build an entity/event-level sentiment analysis system, which is able to recognize and infer both explicit and implicit sentiments toward entities and events in the text. We design Probabilistic Soft Logic models that integrate explicit sentiments, inference rules, and +/-effect event information (events that positively or negatively affect entities). The experiments show that the method is able to greatly improve over baseline accuracies in recognizing entity/event-level sentiments. © 2015 Association for Computational Linguistics.

关键词： Sentiment analysis

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MPQA 3.0: An entity/event-level sentiment corpus

MPQA 3.0: An entity/event-level sentiment corpus

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Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, NAACL HLT 2015

作者： Deng, Lingjia Wiebe, Janyce Intelligent Systems Program Department of Computer Science University of Pittsburgh United States

ISBN: (纸本)9781941643495

This paper presents an annotation scheme for adding entity and event target annotations to the MPQA corpus, a rich span-annotated opinion corpus. The new corpus promises to be a valuable new resource for developing systems for entity/event-level sentiment analysis. Such systems, in turn, would be valuable in NLP applications such as Automatic Question Answering. We introduce the idea of entity and event targets (eTargets), describe the annotation scheme, and present the results of an agreement study. © 2015 Association for Computational Linguistics.

关键词： Sentiment analysis

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Binary classifier calibration using a Bayesian non-parametric approach

Binary classifier calibration using a Bayesian non-parametri...

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SIAM International Conference on Data Mining 2015, SDM 2015

作者： Naeini, Mahdi Pakdaman Cooper, Gregory F. Hauskrecht, Milos Intelligent Systems Program University of Pittsburgh United States Department of Biomedical Informatics University of Pittsburgh United States Computer Science Department University of Pittsburgh United States

ISBN: (纸本)9781510811522

Learning probabilistic predictive models that are well calibrated is critical for many prediction and decisionmaking tasks in Data mining. This paper presents two new non-parametric methods for calibrating outputs of binary classification models: a method based on the Bayes optimal selection and a method based on the Bayesian model averaging. The advantage of these methods is that they are independent of the algorithm used to learn a predictive model, and they can be applied in a post-processing step, after the model is learned. This makes them applicable to a wide variety of machine learning models and methods. These calibration methods, as well as other methods, are tested on a variety of datasets in terms of both discrimination and calibration performance. The results show the methods either outperform or are comparable in performance to the state-of-the-art calibration methods. Copyright © SIAM.

关键词： Calibration

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How to interpret the results of medical time series data analysis: Classical statistical approaches versus dynamic Bayesian network modeling

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Journal of Pathology Informatics 2016年第1期7卷 50-50页

作者： Onisko, Agnieszka Druzdzel, Marek J. Austin, R. Marshall Department of Pathology University of Pittsburgh Medical Center Magee-Womens Hospital Pittsburgh United States Faculty of Computer Science Bialystok University of Technology Bialystok 15-351 Poland Decision Systems Laboratory School of Information Sciences and Intelligent Systems Program University of Pittsburgh Pittsburgh PA United States

Background: Classical statistics is a well-established approach in the analysis of medical data. While the medical community seems to be familiar with the concept of a statistical analysis and its interpretation, the Bayesian approach, argued by many of its proponents to be superior to the classical frequentist approach, is still not well-recognized in the analysis of medical data. Aim: The goal of this study is to encourage data analysts to use the Bayesian approach, such as modeling with graphical probabilistic networks, as an insightful alternative to classical statistical analysis of medical data. Materials and Methods: This paper offers a comparison of two approaches to analysis of medical time series data: (1) classical statistical approach, such as the Kaplan-Meier estimator and the Cox proportional hazards regression model, and (2) dynamic Bayesian network modeling. Our comparison is based on time series cervical cancer screening data collected at Magee-Womens Hospital, University of Pittsburgh Medical Center over 10 years. Results: The main outcomes of our comparison are cervical cancer risk assessments produced by the three approaches. However, our analysis discusses also several aspects of the comparison, such as modeling assumptions, model building, dealing with incomplete data, individualized risk assessment, results interpretation, and model validation. Conclusion : Our study shows that the Bayesian approach is (1) much more flexible in terms of modeling effort, and (2) it offers an individualized risk assessment, which is more cumbersome for classical statistical approaches. © 2016 Journal of Pathology Informatics | Published by Wolters Kluwer -Medknow.

关键词： Cervical cancer screening Cox proportional hazards regression model dynamic Bayesian networks Kaplan-Meier estimator time series data

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