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Understanding adversarial attacks on deep learning based medical image analysis systems

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arXiv 2019年

作者： Ma, Xingjun Niu, Yuhao Gu, Lin Wang, Yisen Zhao, Yitian Bailey, James Lu, Feng State Key Laboratory of VR Technology and Systems School of CSE Beihang University Beijing China School of Computing and Information Systems The University of Melbourne ParkvilleVIC3010 Australia Beijing Advanced Innovation Center for Big Data-Based Precision Medicine Beihang University Beijing China National Institute of Informatics Tokyo101-8430 Japan Department of Computer Science and Engineering Shanghai Jiao Tong University Shanghai China Cixi Instuitue of Biomedical Engineering Ningbo Institute of Industrial Technology Chinese Academy of Sciences Ningbo China

Deep neural networks (DNNs) have become popular for medical image analysis tasks like cancer diagnosis and lesion detection. However, a recent study demonstrates that medical deep learning systems can be compromised by carefully-engineered adversarial examples/attacks with small imperceptible perturbations. This raises safety concerns about the deployment of these systems in clinical settings. In this paper, we provide a deeper understanding of adversarial examples in the context of medical images. We find that medical DNN models can be more vulnerable to adversarial attacks compared to models for natural images, according to two different viewpoints. Surprisingly, we also find that medical adversarial attacks can be easily detected, i.e., simple detectors can achieve over 98% detection AUC against state-of-the-art attacks, due to fundamental feature differences compared to normal examples. We believe these findings may be a useful basis to approach the design of more explainable and secure medical deep learning systems. Copyright © 2019, The Authors. All rights reserved.

关键词： Deep neural networks

VerSe: A Vertebrae Labelling and Segmentation Benchmark for Multi-detector CT Images

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arXiv 2020年

作者： Sekuboyina, Anjany Kumar Husseini, Malek E. Bayat, Amirhossein Löffler, Maximilian Liebl, Hans Li, Hongwei Tetteh, Giles Kukačka, Jan Payer, Christian Štern, Darko Urschler, Martin Chen, Maodong Cheng, Dalong Lessmann, Nikolas Hu, Yujin Wang, Tianfu Yang, Dong Xu, Daguang Ambellan, Felix Amiranashvili, Tamaz Ehlke, Moritz Lamecker, Hans Lehnert, Sebastian Lirio, Marilia de Olaguer, Nicolás Pérez Ramm, Heiko Sahu, Manish Tack, Alexander Zachow, Stefan Jiang, Tao Ma, Xinjun Angerman, Christoph Wang, Xin Brown, Kevin Kirszenberg, Alexandre Puybareau, Élodie Chen, Di Bai, Yiwei Rapazzo, Brandon H. Yeah, Timyoas Zhang, Amber Xu, Shangliang Hou, Feng He, Zhiqiang Zeng, Chan Xiangshang, Zheng Liming, Xu Netherton, Tucker J. Mumme, Raymond P. Court, Laurence E. Huang, Zixun He, Chenhang Wang, Li-Wen Ling, Sai Ho Huynh, Lê Duy Boutry, Nicolas Jakubicek, Roman Chmelik, Jiri Mulay, Supriti Sivaprakasam, Mohanasankar Paetzold, Johannes C. Shit, Suprosanna Ezhov, Ivan Wiestler, Benedikt Glocker, Ben Valentinitsch, Alexander Rempfler, Markus Menze, Björn H. Kirschke, Jan S. Department of Informatics Technical University of Munich Germany Munich School of BioEngineering Technical University of Munich Germany Department of Neuroradiology Klinikum Rechts der Isar Germany Department for Quantitative Biomedicine University of Zurich Switzerland Friedrich Miescher Institute for Biomedical Engineering Switzerland Institute of Biological and Medical Imaging Helmholtz Zentrum München Germany Department of Computing Imperial College London United Kingdom Institute of Computer Graphics and Vision Graz University of Technology Austria Gottfried Schatz Research Center: Biophysics Medical University of Graz Austria School of Computer Science The University of Auckland New Zealand Computer Vision Group iFLYTEK Research South China China Department of Radiology and Nuclear Medicine Radboud University Medical Center Nijmegen Netherlands Shenzhen Research Institute of Big Data China School of Biomedical Engineering Health Science Center Shenzhen University China NVIDIA Corporation United States Zuse Institute Berlin Germany 1000shapes GmbH Berlin Germany Damo Academy Alibaba Group China Department of Mathematics University of Innsbruck Austria Department of Electronic Engineering Fudan University China New York University United States France Deep Reasoning AI Inc United States Technical University of Munich Germany East China Normal University China Chinese Academy of Sciences China Lenovo Group China Ping An Technologies China College of Computer Science and Technology Zhejiang University China Real Doctor AI Research Centre Zhejiang University China The University of Texas MD Anderson Cancer Center United States Department of Electronic and Information Engineering The Hong Kong Polytechnic University China Department of Computing The Hong Kong Polytechnic University China The School of Biomedical Engineering University of Technology Sydney Australia Department of Biomedical Engineering Brno University of Technology Czech Republic India

Vertebral labelling and segmentation are two fundamental tasks in an automated spine processing pipeline. Reliable and accurate processing of spine images is expected to benefit clinical decision support systems for diagnosis, surgery planning, and population-based analysis of spine and bone health. However, designing automated algorithms for spine processing is challenging predominantly due to considerable variations in anatomy and acquisition protocols and due to a severe shortage of publicly available data. Addressing these limitations, the Large Scale Vertebrae Segmentation Challenge (VerSe) was organised in conjunction with the International Conference on Medical Image computing and Computer Assisted Intervention (MICCAI) in 2019 and 2020, with a call for algorithms tackling the labelling and segmentation of vertebrae. Two datasets containing a total of 374 multi-detector CT scans from 355 patients were prepared and 4505 vertebrae have individually been annotated at voxel level by a human-machine hybrid algorithm (https://***/nqjyw/, https://***/t98fz/). A total of 25 algorithms were benchmarked on these datasets. In this work, we present the results of this evaluation and further investigate the performance variation at the vertebra level, scan level, and different fields of view. We also evaluate the generalisability of the approaches to an implicit domain shift in data by evaluating the top-performing algorithms of one challenge iteration on data from the other iteration. The principal takeaway from VerSe: the performance of an algorithm in labelling and segmenting a spine scan hinges on its ability to correctly identify vertebrae in cases of rare anatomical variations. The VerSe content and code can be accessed at: https://***/anjany/verse. © 2020, CC BY-NC-ND.

关键词： Computerized tomography

Corrigendum: Old-growth forest loss and secondary forest recovery across Amazonian countries (2021 Environ. Res. Lett. 16 085009)

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Environmental Research Letters 2022年第10期17卷 109501-109501页

作者： Charlotte C Smith John R Healey Erika Berenguer Paul J Young Ben Taylor Fernando Elias Fernando Espírito-Santo Jos Barlow Lancaster Environment Centre Lancaster University LA1 4YQ Lancaster United Kingdom School of Natural Sciences College of Environmental Sciences and Engineering Bangor University Bangor LL57 2DG United Kingdom Environmental Change Institute School of Geography and the Environment University of Oxford OX1 3QY Oxford United Kingdom Centre of Excellence for Environmental Data Science Lancaster University and the UK Centre for Ecology and Hydrology Lancaster United Kingdom Institute for Social Futures Lancaster University Lancaster United Kingdom School of Computing and Communications Lancaster University LA1 4YQ Lancaster United Kingdom Embrapa Amazônia Oriental Rede Amazônia Sustentável 66095-903 Belém PA Brazil Leicester Institute of Space and Earth Observation Centre for Landscape and Climate Research School of Geography Geology and Environment University of Leicester University Road Leicester LE1 7RH United Kingdom

Design and development of learning mathematics game for primary school using handheld augmented reality

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IOP Conference Series: Materials Science and engineering 2020年第1期979卷

作者： E Song N M Suaib A J Sihes R Alwee Z Mohd Yunos School of Computing Faculty of Engineering Universiti Teknologi Malaysia 81310 Johor Malaysia UTM Big Data Center Ibnu Sina Institute of Scientific and Industrial Research Universiti Teknologi Malaysia 81310 UTM Skudai Johor Malaysia. School of Education Faculty of Social Sciences and Humanities Universiti Teknologi Malaysia 81310 UTM Skudai Johor Malaysia.

The traditional learning methods have some drawbacks and limitation such as restricted learning space, high cost, and lack of student engagement. In the era of digitalization, traditional education starts to transform into a more dynamic and modern education with the influence of the 21st-century learning method. Moreover, due to the pandemic, schools and universities are moving to digital learning to contain the spread of Coronavirus Disease 2019 (COVID-19). Therefore, the aim of this project is to develop a Mathematics game using handheld Augmented Reality (HAR) for primary school children as an alternative method in learning Mathematics. There are three main phases have been carried out, first is to study the requirements of an educational game. The second phase involves the design and development including the game element, storyline, game characters as well as user interface design. Finally, the third phase is integrating the learning Mathematics game using HAR, followed by evaluation. The evaluation of the learning Mathematics game was carried out for usability and user acceptance. The usability results show that the users are satisfied with the prototype and feedbacks show the game is fun. Overall, this project has successfully produced a learning Mathematics game using HAR for primary school children.

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iSplit LBI: Individualized partial ranking with ties via split LBI

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arXiv 2019年

作者： Xu, Qianqian Sun, Xinwei Yang, Zhiyong Cao, Xiaochun Huang, Qingming Yao, Yuan Key Lab. of Intelligent Information Processing Institute of Computing Technology CAS Microsoft Research Asia State Key Laboratory of Information Security Institute of Information Engineering CAS School of Cyber Security University of Chinese Academy of Sciences School of Computer Science and Tech. University of Chinese Academy of Sciences Key Laboratory of Big Data Mining and Knowledge Management CAS Peng Cheng Laboratory Department of Mathematics Hong Kong University of Science and Technology Hong Kong

Due to the inherent uncertainty of data, the problem of predicting partial ranking from pairwise comparison data with ties has attracted increasing interest in recent years. However, in real-world scenarios, different individuals often hold distinct preferences. It might be misleading to merely look at a global partial ranking while ignoring personal diversity. In this paper, instead of learning a global ranking which is agreed with the consensus, we pursue the tie-aware partial ranking from an individualized perspective. Particularly, we formulate a unified framework which not only can be used for individualized partial ranking prediction, but also be helpful for abnormal user selection. This is realized by a variable splitting-based algorithm called iSplitLBI. Specifically, our algorithm generates a sequence of estimations with a regularization path, where both the hyperparameters and model parameters are updated. At each step of the path, the parameters can be decomposed into three orthogonal parts, namely, abnormal signals, personalized signals and random noise. The abnormal signals can serve the purpose of abnormal user selection, while the abnormal signals and personalized signals together are mainly responsible for individual partial ranking prediction. Extensive experiments on simulated and real-world datasets demonstrate that our new approach significantly outperforms state-of-the-art alternatives. The code is now availiable at https://***/qianqianxu010/ NeurIPS2019-iSplitLBI. Copyright © 2019, The Authors. All rights reserved.

关键词： Forecasting

Synergy of Binary Substitutions for Improving the Cycle Performance in LiNiO2 Revealed by Ab Initio Materials Informatics

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arXiv 2020年

作者： Yoshida, Tomohiro Maezono, Ryo Hongo, Kenta Department of Computer-Aided Engineering and Development Sumitomo Metal Mining Co. Ltd. 3-5 Sobiraki-cho NiihamaEhime792-0001 Japan School of Information Science JAIST Asahidai 1-1 IshikawaNomi923-1292 Japan Computational Engineering Applications Unit RIKEN 2-1 Hirosawa SaitamaWako351-0198 Japan Research Center for Advanced Computing Infrastructure JAIST Asahidai 1-1 NomiIshikawa923-1292 Japan Center for Materials Research by Information Integration Research and Services Division of Materials Data and Integrated System National Institute for Materials Science 1-2-1 Sengen TsukubaIbaraki305-0047 Japan PRESTO Japan Science and Technology Agency 4-1-8 Honcho SaitamaKawaguchi-shi322-0012 Japan

We explore LiNiO2-based cathode materials with two-element substitutions by an ab initio simulation based materials informatics (AIMI) approach. According to our previous study, a higher cycle performance strongly correlates with less structural change during charge–discharge cycles;the latter can be used for evaluating the former. However, if we target the full substitution space, full simulations are infeasible even for all binary combinations. To circumvent such an exhaustive search, we rely on Bayesian optimization. Actually, by searching only 4% of all the combinations, our AIMI approach discovered two promising combinations, Cr-Mg and Cr-Re, whereas each atom itself never improved the performance. We conclude that the synergy never emerges from a common strategy restricted to combinations of "good" elements that individually improve the performance. In addition, we propose a guideline for the binary substitutions by elucidating the mechanism of crystal structure change. Copyright © 2020, The Authors. All rights reserved.

关键词： Binary alloys

Long-term vibration monitoring of a cable-stayed bridge: Effects of environmental and operational conditions 8

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Long-term vibration monitoring of a cable-stayed bridge: Eff...

8th International Conference on Structural Health Monitoring of Intelligent Infrastructure, SHMII 2017

作者： Zhu, X.Q. Samali, B. Rashidi, M. Alamdari, M.M. School of Computing Engineering and Mathematics Western Sydney University Australia Centre for Infrastructure Engineering Western Sydney University Australia DATA61 - Australia Australia

ISBN: (纸本)9781925553055

This study is to investigate the effects of environmental and operational conditions on the dynamic behaviour of bridge structures. A long-term monitoring system has been installed on a cable-stayed bridge and there are 24 accelerometers on bridge deck. Monitoring data from two typical days have been analysed and the modal analysis is also carried out to extract modal parameters. Effects of changes in environmental and operational conditions, such as temperature and traffic, on structural dynamic properties are discussed. © 2017 International Society for Structural Health Monitoring of Intelligent Infrastrucure. All rights reserved.

关键词： Cable stayed bridges

An Algorithm for Describing the Convex and Concave Shape of Protein Surface

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An Algorithm for Describing the Convex and Concave Shape of ...

2018国际计算机前沿大会（原国际青年计算机大会）

作者： Wei Wang Keliang Li Hehe Lv Lin Sun Hongjun Zhang Jinling Shi Shiguang Zhang Yun Zhou Yuan Zhao Jingjing Xv Department of Computer Science and Technology College of Computer and Information Engineering Henan Normal University Laboratory of Computation Intelligence and Information Processing Engineering Technology Research Center for Computing Intelligence and Data Mining School of Aviation Engineering Anyang University School of International Education Xuchang University

Protein surface plays a key role in many biological *** proteins participate in the life activities of cells via binding to other proteins or ligand molecules. It is an important work to study protein structure and function by analyzing the protein surface shape. Based on the CX algorithm and the 2 D fngerprint-base method, we proposed a FCX method to identify the morphology of bulges and depressions on the protein surface. The experimental results show that the FCX algorithm has a more desirable outcome than CX algorithm. The FCX algorithm has a higher correlation with the convex and concave features than CX values with solvent accessibility, solvent accessibility, and Bfactor's Pearson correlation coefficient. This result shows that the FCX algorithm can describe the shape of the protein surface residues more accurately than the CX algorithm.

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The Brain Tumor Sequence Registration (BraTS-Reg) Challenge: Establishing Correspondence Between Pre-Operative and Follow-up MRI Scans of Diffuse Glioma Patients

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arXiv 2021年

作者： Baheti, Bhakti Chakrabarty, Satrajit Akbari, Hamed Bilello, Michel Wiestler, Benedikt Schwarting, Julian Calabrese, Evan Rudie, Jeffrey Abidi, Syed Mousa, Mina Villanueva-Meyer, Javier Fields, Brandon K.K. Kofler, Florian Shinohara, Russell Takeshi Iglesias, Juan Eugenio Mok, Tony C.W. Chung, Albert C.S. Wodzinski, Marek Jurgas, Artur Marini, Niccolò Atzori, Manfredo Müller, Henning Grosbröhmer, Christoph Siebert, Hanna Hansen, Lasse Heinrich, Mattias P. Canalini, Luca Klein, Jan Gerken, Annika Heldmann, Stefan Hering, Alessa Hahn, Horst K. Meng, Mingyuan Bi, Lei Feng, Dagan Kim, Jinman Zeineldinal, Ramy A. Karar, Mohamed E. Mathis-Ullrich, Franziska Burgert, Oliver Abderezaei, Javid Pionteck, Aymeric Chopra, Agamdeep Kurt, Mehmet Yan, Kewei Yan, Yonghong Tang, Zhe Ma, Jianqiang Nasser, Sahar Almahfouz Kurian, Nikhil Cherian Meena, Mohit Shamsi, Saqib Sethi, Amit Tustison, Nicholas J. Avants, Brian B. Cook, Philip Gee, James C. Tian, Lin Greer, Hastings Niethammer, Marc Hoopesar, Andrew Hoffmannas, Malte Dalcaar, Adrian V. Christodoulidis, Stergios Estiene, Théo Vakalopoulou, Maria Paragios, Nikos Marcus, Daniel S. Davatzikos, Christos Sotiras, Aristeidis Menze, Bjoern Bakas, Spyridon Waldmannstetter, Diana Division of Computational Pathology Department of Pathology and Laboratory Medicine Indiana University School of Medicine IndianapolisIN United States Department of Electrical and Systems Engineering Washington University in St. Louis St. LouisMO United States GE HealthCare San RamonCA United States University of Pennsylvania PhiladelphiaPA United States Department of Radiology Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Mallinckrodt Institute of Radiology Washington University School of Medicine St. LouisMO United States Institute for Informatics Data Science & Biostatistics Washington University School of Medicine St. LouisMO United States Department of Bioengineering Santa Clara University Santa ClaraCA United States Department of Quantitative Biomedicine University of Zurich Zurich Switzerland Department of Computer Science TUM School of Computation Information and Technology Technical University of Munich Munich Germany Department of Diagnostic and Interventional Neuroradiology School of Medicine Klinikum rechts der Isar Technical University of Munich Munich Germany Department of Nuclear Medicine University Hospital Regensburg Regensburg Germany University Hospital Regensburg Regensburg Germany Department of Radiology & Biomedical Imaging University of California San FranciscoCA United States Department of Radiology Duke University Medical Center DurhamNC United States Department of Radiology University of California San DiegoCA United States Helmholtz AI Helmholtz Munich Neuherberg Germany Penn Statistics in Imaging and Visualization Center Department of Biostatistics Epidemiology and Informatics University of Pennsylvania Philadelphia United States Massachusetts General Hospital Harvard Medical School United States Centre for Medical Imaging Computing University College London United Kingdom The Hong Kong University of Science and Technology Hong Kong University of Applied Sciences West

Registration of longitudinal brain Magnetic Resonance Imaging (MRI) scans containing pathologies is challenging due to dramatic changes in tissue appearance. Although there has been considerable progress in developing general-purpose medical image registration techniques, they have not yet attained the requisite precision and reliability for this task, highlighting its inherent complexity. Here we describe the Brain Tumor Sequence Registration (BraTS-Reg) challenge, as the first public benchmark environment for deformable registration algorithms focusing on estimating correspondences between pre-operative and follow-up scans of the same patient diagnosed with a diffuse brain glioma. The challenge was conducted in conjunction with both the IEEE International Symposium on Biomedical Imaging (ISBI) 2022 and the International Conference on Medical Image computing and Computer-Assisted Intervention (MICCAI) 2022. The BraTS-Reg data comprise de-identified multi-institutional multi-parametric MRI (mpMRI) scans, curated for size and resolution according to a canonical anatomical template, and divided into training, validation, and testing sets. Clinical experts annotated ground truth (GT) landmark points of anatomical locations distinct across the temporal domain. The training data with their GT annotations, were publicly released to enable the development of registration algorithms. The validation data, without their GT annotations, were also released to allow for algorithmic evaluation prior to the testing phase, which only allowed submission of containerized algorithms for evaluation on hidden hold-out testing data. Quantitative evaluation and ranking was based on the Median Euclidean Error (MEE), Robustness, and the determinant of the Jacobian of the displacement field. The top-ranked methodologies yielded similar performance across all evaluation metrics and shared several methodological commonalities, including pre-alignment, deep neural networks, inverse consistency

关键词： Magnetic resonance imaging