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arXiv 2021年

作者： Wagner, Martin Müller-Stich, Beat-Peter Kisilenko, Anna Tran, Duc Heger, Patrick Mündermann, Lars Lubotsky, David M. Müller, Benjamin Davitashvili, Tornike Capek, Manuela Reinke, Annika Yu, Tong Vardazaryan, Armine Innocent Nwoye, Chinedu Padoy, Nicolas Liu, Xinyang Lee, Eung-Joo Disch, Constantin Meine, Hans Xia, Tong Jia, Fucang Kondo, Satoshi Reiter, Wolfgang Jin, Yueming Long, Yonghao Jiang, Meirui Dou, Qi Heng, Pheng Ann Twick, Isabell Kirtac, Kadir Hosgor, Enes Bolmgren, Jon Lindström Stenzel, Michael von Siemens, Björn Kenngott, Hannes G. Nickel, Felix von Frankenberg, Moritz Mathis-Ullrich, Franziska Maier-Hein, Lena Speidel, Stefanie Bodenstedt, Sebastian Department for General Visceral and Transplantation Surgery Heidelberg University Hospital Im Neuenheimer Feld 420 Heidelberg69120 Germany Heidelberg Im Neuenheimer Feld 460 Heidelberg69120 Germany Data Assisted Solutions Corporate Research & Technology KARL STORZ SE & Co. KG Dr. Karl-Storz-Str. 34 Tuttlingen78332 Germany Im Neuenheimer Feld 223 Heidelberg69120 Germany Im Neuenheimer Feld 223 Heidelberg69120 Germany Faculty of Mathematics and Computer Science Heidelberg University Im Neuenheimer Feld 205 Heidelberg69120 Germany ICube University of Strasbourg CNRS France 300 bd Sébastien Brant - CS 10413 Illkirch CedexF-67412 France IHU Strasbourg France 1 Place de l'hôpital Strasbourg67000 France Sheikh Zayed Institute for Pediatric Surgical Innovation Children's National Hospital 111 Michigan Ave NW WashingtonDC20010 United States University of Maryland College Park 2405 A V Williams Building College ParkMD20742 United States Fraunhofer Institute for Digital Medicine MEVIS Max-von-Laue-Str. 2 Bremen28359 Germany University of Bremen FB3 Medical Image Computing Group ℅ Fraunhofer MEVIS Am Fallturm 1 Bremen28359 Germany Lab for Medical Imaging and Digital Surgery Shenzhen Institute of Advanced Technology Chinese Academy of Sciences Shenzhen518055 China Konika Minolta Inc. JP TOWER 2-7-2 Marunouchi Chiyoda-ku Tokyo100-7015 Japan Wintegral GmbH Ehrenbreitsteiner Str. 36 München80993 Germany Department of Computer Science and Engineering Ho Sin-Hang Engineering Building The Chinese University of Hong Kong Sha Tin NT Hong Kong Caresyntax GmbH Komturstr. 18A Berlin12099 Germany Department of Surgery Salem Hospital of the Evangelische Stadtmission Heidelberg Zeppelinstrasse 11-33 Heidelberg69121 Germany Health Robotics and Automation Laboratory Institute for Anthropomatics and Robotics Karlsruhe Institute of Technology Geb. 40.28 KIT Campus Süd Engler-Bunte-Ring 8 Karlsruhe76131 Germany Medical Faculty Heidelberg Uni

PURPOSE: Surgical workflow and skill analysis are key technologies for the next generation of cognitive surgical assistance systems. These systems could increase the safety of the operation through context-sensitive warnings and semi-autonomous robotic assistance or improve training of surgeons via data-driven feedback. In surgical workflow analysis up to 91% average precision has been reported for phase recognition on an open data single-center video dataset. In this work we investigated the generalizability of phase recognition algorithms in a multi-center setting including more difficult recognition tasks such as surgical action and surgical skill. METHODS: To achieve this goal, a dataset with 33 laparoscopic cholecystectomy videos from three surgical centers with a total operation time of 22 hours was created. Labels included framewise annotation of seven surgical phases with 250 phase transitions, 5514 occurences of four surgical actions, 6980 occurences of 21 surgical instruments from seven instrument categories and 495 skill classifications in five skill dimensions. The dataset was used in the 2019 international Endoscopic vision challenge, sub-challenge for surgical workflow and skill analysis. Here, 12 research teams trained and submitted their machine learning algorithms for recognition of phase, action, instrument and/or skill assessment. RESULTS: F1-scores were achieved for phase recognition between 23.9% and 67.7% (n=9 teams), for instrument presence detection between 38.5% and 63.8% (n=8 teams), but for action recognition only between 21.8% and 23.3% (n=5 teams). The average absolute error for skill assessment was 0.78 (n=1 team). CONCLUSION: Surgical workflow and skill analysis are promising technologies to support the surgical team, but are not solved yet, as shown by our comparison of machine learning algorithms. This novel HeiChole benchmark can be used for comparable evaluation and validation of future work. In future studies, it is of utmost impo

关键词： Learning algorithms

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Microrobots: A Needle‐Type Microrobot for Targeted Drug Delivery by Affixing to a Microtissue (Adv. Healthcare Mater. 7/2020)

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Advanced Healthcare Materials 2020年第7期9卷

作者： Seungmin Lee Jin‐young Kim Junyoung Kim Ali Kafash Hoshiar Jongeon Park Sunkey Lee Jonghyun Kim Salvador Pané Bradley J. Nelson Hongsoo Choi Department of Robotics Engineering DGIST‐ETH Microrobot Research Center Daegu‐Gyeongbuk Institute of Science & Technology (DGIST) 333 Techno jungang‐daero Hyeonpung‐eup Dalseong‐Gun Daegu 42988 Republic of Korea School of Computer Science and Electronic Engineering University of Essex Colchester CO4 3SQ UK School of Mechanical Engineering Sungkyunkwan University 2066 Seobu‐ro Jangan‐gu Suwon‐si Gyeonggi‐do 16419 South Korea Institute of Robotics and Intelligent Systems ETH Zurich Zurich CH‐8092 Switzerland

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iCLAP: Shape recognition by combining proprioception and touch sensing

arXiv

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arXiv 2018年

作者： Luo, Shan Mou, Wenxuan Althoefer, Kaspar Liu, Hongbin Center for Robotics Research Department of Informatics King's College London LondonWC2R 2LS United Kingdom Department of Computer Science University of Liverpool LiverpoolL69 3BX United Kingdom Multimedia and Vision Research Group School of Electronic Engineering and Computer Science Queen Mary University of London LondonE1 4NS United Kingdom School of Engineering and Materials Science Queen Mary University of London LondonE1 4NS United Kingdom

For humans, both the proprioception and touch sensing are highly utilized when performing haptic perception. However, most approaches in robotics use only either proprioceptive data or touch data in haptic object recognition. In this paper, we present a novel method named Iterative Closest Labeled Point (iCLAP) to link the kinesthetic cues and tactile patterns fundamentally and also introduce its extensions to recognize object shapes. In the training phase, the iCLAP first clusters the features of tactile readings into a codebook and assigns these features with distinct label numbers. A 4D point cloud of the object is then formed by taking the label numbers of the tactile features as an additional dimension to the 3D sensor positions;hence, the two sensing modalities are merged to achieve a synthesized perception of the touched object. Furthermore, we developed and validated hybrid fusion strategies, product based and weighted sum based, to combine decisions obtained from iCLAP and single sensing modalities. Extensive experimentation demonstrates a dramatic improvement of object recognition using the proposed methods and it shows great potential to enhance robot perception ability. Copyright © 2018, The Authors. All rights reserved.

关键词： Object recognition

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Image patch matching using convolutional descriptors with euclidean distance

arXiv

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arXiv 2017年

作者： Melekhov, Iaroslav Kannala, Juho Rahtu, Esa Department of Computer Science Aalto University Center for Machine Vision Research University of Oulu

In this work we propose a neural network based image de-scriptor suitable for image patch matching, which is an important task in many computer vision applications. Our approach is inuenced by recent success of deep convolutional neural networks (CNNs) in object detection and classification tasks. We develop a model which maps the raw input patch to a low dimensional feature vector so that the dis-tance between representations is small for similar patches and large oth-erwise. As a distance metric we utilize L2 norm, i.e. Euclidean distance, which is fast to evaluate and used in most popular hand-crafted descrip-tors, such as SIFT. According to the results, our approach outperforms state-of-The-Art L2-based descriptors and can be considered as a direct replacement of SIFT. In addition, we conducted experiments with batch normalization and histogram equalization as a preprocessing method of the input data. The results confirm that these techniques further improve the performance of the proposed descriptor. Finally, we show promising preliminary results by appending our CNNs with recently proposed spa-tial transformer networks and provide a visualisation and interpretation of their impact. Copyright © 2017, The Authors. All rights reserved.

关键词： Convolution

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Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge

arXiv

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arXiv 2019年

作者： Kuijf, Hugo J. Biesbroek, J. Matthijs Bresser, Jeroen de Heinen, Rutger Andermatt, Simon Bento, Mariana Berseth, Matt Belyaev, Mikhail Cardoso, M. Jorge Casamitjana, Adrià Collins, D. Louis Dadar, Mahsa Georgiou, Achilleas Ghafoorian, Mohsen Jin, Dakai Khademi, April Knight, Jesse Li, Hongwei Lladó, Xavier Luna, Miguel Mahmood, Qaiser McKinley, Richard Mehrtash, Alireza Ourselin, Sébastien Park, Bo-yong Park, Hyunjin Park, Sang Hyun Pezold, Simon Puybareau, Elodie Rittner, Leticia Sudre, Carole H. Valverde, Sergi Vilaplana, Verónica Wiest, Roland Xu, Yongchao Xu, Ziyue Zeng, Guodong Zhang, Jianguo Zheng, Guoyan Chen, Christopher Flier, Wiesje van der Barkhof, Frederik Viergever, Max A. Biessels, Geert Jan Image Sciences Institute UMC Utrecht Utrecht University Netherlands Brain Center Rudolf Magnus UMC Utrecht Utrecht University Netherlands Department of Radiology UMC Utrecht Department of Radiology LUMC Leiden Netherlands Department of Biomedical Engineering University of Basel Allschwil Switzerland Radiology and Clinical Neuroscience Hotchkiss Brain Institute University of Calgary AB Canada NLP Logix Skolkovo Institute of Science and Technology School of Biomedical Engineering and Imaging Sciences King’s College London Centre for Medical Image Computing University College London Signal Theory and Communications Department Universitat Politècnica de Catalunya BarcelonaTech Barcelona Spain McGill University Canada Computational Statistics and Machine Learning MSc University College London TomTom Amsterdam Netherlands Department of Radiology and Imaging Science National Institutes of Health United States Ryerson University Canada University of Guelph Canada Sun Yat-sen University University of Dundee Technical University of Munich Research institute of Computer Vision and Robotics University of Girona Spain Department of Robotics Engineering Daegu Gyeongbuk Institute of Science and Technology Daegu Korea Republic of Pakistan Institute of Nuclear Science and Technology Support Center for Advanced Neuroimaging Institute for Diagnostic and Interventional Neuroradiology Inselspital University of Bern Switzerland Electrical and Computer Engineering Department University of British Columbia Vancouver Department of Radiology Brigham and Women’s Hospital Harvard Medical School Boston School of Biomedical Engineering and Imaging Sciences King’s College London Suwon Korea Republic of School of Electronic and Electrical Engineering Sungkyunkwan University Suwon Korea Republic of France School of Electrical and Computer Engineering University of Campinas SP Brazil School of Biomedical Engineering and Imaging Sciences King’s College London Centre for Medical I

Quantification of cerebral white matter hyperintensities (WMH) of presumed vascular origin is of key importance in many neurological research studies. Currently, measurements are often still obtained from manual segmentations on brain MR images, which is a laborious procedure. Automatic WMH segmentation methods exist, but a standardized comparison of the performance of such methods is lacking. We organized a scientific challenge, in which developers could evaluate their method on a standardized multi-center/-scanner image dataset, giving an objective comparison: the WMH Segmentation Challenge (https://***/).Sixty T1+FLAIR images from three MR scanners were released with manual WMH segmentations for training. A test set of 110 images from five MR scanners was used for evaluation. Segmentation methods had to be containerized and submitted to the challenge organizers. Five evaluation metrics were used to rank the methods: (1) Dice similarity coefficient, (2) modified Hausdorff distance (95th percentile), (3) absolute log-transformed volume difference, (4) sensitivity for detecting individual lesions, and (5) F1-score for individual lesions. Additionally, methods were ranked on their inter-scanner *** participants submitted their method for evaluation. This paper provides a detailed analysis of the results. In brief, there is a cluster of four methods that rank significantly better than the other methods, with one clear winner. The inter-scanner robustness ranking shows that not all methods generalize to unseen *** challenge remains open for future submissions and provides a public platform for method evaluation. Copyright © 2019, The Authors. All rights reserved.

关键词： Magnetic resonance imaging

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Gene expression imputation across multiple brain regions provides insights into schizophrenia risk (vol 51, pg 659, 2019)

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NATURE GENETICS 2019年第6期51卷 1068-1068页

作者： Huckins, Laura M. Dobbyn, Amanda Ruderfer, Douglas M. Hoffman, Gabriel Wang, Weiqing Pardinas, Antonio F. Rajagopal, Veera M. Als, Thomas D. Nguyen, Hoang T. Girdhar, Kiran Boocock, James Roussos, Panos Fromer, Menachem Kramer, Robin Domenici, Enrico Gamazon, Eric R. Purcell, Shaun Demontis, Ditte Borglum, Anders D. Walters, James T. R. O'Donovan, Michael C. Sullivan, Patrick Owen, Michael J. Devlin, Bernie Sieberts, Solveig K. Cox, Nancy J. Im, Hae Kyung Sklar, Pamela Stahl, Eli A. Pamela Sklar Division of Psychiatric Genomics Icahn School of Medicine at Mount Sinai New York NY USA Department of Genetics and Genomics Icahn School of Medicine at Mount Sinai New York NY USA Department of Psychiatry Icahn School of Medicine at Mount Sinai New York NY USA Icahn Institute for Genomics and Multiscale Biology Icahn School of Medicine at Mount Sinai New York NY USA Vanderbilt University Medical Center Nashville TN USA MRC Centre for Neuropsychiatric Genetics and Genomics Cardiff University Cardiff UK Department of Biomedicine Aarhus University Aarhus Denmark The Lundbeck Foundation Initiative for Integrative Psychiatric Research iPSYCH Denmark Center for Integrative Sequencing Aarhus University Aarhus Denmark Department of Human Genetics David Geffen School of Medicine University of California Los Angeles Los Angeles CA USA Human Brain Collection Core National Institute of Mental Health Bethesda MD USA Laboratory of Neurogenomic Biomarkers Centre for Integrative Biology (CIBIO) University of Trento Trento Italy Clare Hall University of Cambridge Cambridge UK University of North Carolina at Chapel Hill Chapel Hill NC USA Karolinska Institutet Stockholm Sweden Department of Psychiatry University of Pittsburgh Pittsburgh PA USA Systems Biology Sage Bionetworks Seattle WA USA Section of Genetic Medicine Department of Medicine University of Chicago Chicago IL USA Integrated Technology Research Laboratories Pharmaceutical Research Division Takeda Pharmaceutical Company Limited Fujisawa Japan Neuropsychiatry Section Department of Psychiatry Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Neuropsychiatric Signaling Program Department of Psychiatry Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Psychiatry JJ Peters Virginia Medical Center Bronx NY USA Department of Neuroscience Icahn School of Medicine at Mount Sinai New York New York NY USA Friedman Brain Institute

Transcriptomic imputation approaches combine eQTL reference panels with large-scale genotype data in order to test associations between disease and gene expression. These genic associations could elucidate signals in complex genome-wide association study (GWAS) loci and may disentangle the role of different tissues in disease development. We used the largest eQTL reference panel for the dorso-lateral prefrontal cortex (DLPFC) to create a set of gene expression predictors and demonstrate their utility. We applied DLPFC and 12 GTEx-brain predictors to 40,299 schizophrenia cases and 65,264 matched controls for a large transcriptomic imputation study of schizophrenia. We identified 413 genic associations across 13 brain regions. Stepwise conditioning identified 67 non-MHC genes, of which 14 did not fall within previous GWAS loci. We identified 36 significantly enriched pathways, including hexosaminidase-A deficiency, and multiple porphyric disorder pathways. We investigated developmental expression patterns among the 67 non-MHC genes and identified specific groups of pre- and postnatal expression.

关键词： Gene expression Genome-wide association studies Schizophrenia Transcriptomics

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Agreeing to cross: How drivers and pedestrians communicate

arXiv

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arXiv 2017年

作者： Rasouli, Amir Kotseruba, Iuliia Tsotsos, John K. Department of Electrical Engineering and Computer Science Center for Vision Research York University Toronto Canada

The contribution of this paper is twofold. The first is a novel dataset for studying behaviors of traffic participants while crossing. Our dataset contains more than 650 samples of pedestrian behaviors in various street configurations and weather conditions. These examples were selected from approx. 240 hours of driving in the city, suburban and urban roads. The second contribution is an analysis of our data from the point of view of joint attention. We identify what types of non-verbal communication cues road users use at the point of crossing, their responses, and under what circumstances the crossing event takes place. It was found that in more than 90% of the cases pedestrians gaze at the approaching cars prior to crossing in non-signalized crosswalks. The crossing action, however, depends on additional factors such as time to collision, explicit driver's reaction or structure of the crosswalk. Copyright © 2017, The Authors. All rights reserved.

关键词： Crosswalks

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Surgical data science-from concepts toward clinical translation

arXiv

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arXiv 2020年

作者： Maier-Hein, Lena Eisenmann, Matthias Sarikaya, Duygu März, Keno Collins, Toby Malpani, Anand Fallert, Johannes Feussner, Hubertus Giannarou, Stamatia Mascagni, Pietro Nakawala, Hirenkumar Park, Adrian Pugh, Carla Stoyanov, Danail Vedula, Swaroop S. Cleary, Kevin Fichtinger, Gabor Forestier, Germain Gibaud, Bernard Grantcharov, Teodor Hashizume, Makoto Heckmann-Nötzel, Doreen Kenngott, Hannes G. Kikinis, Ron Mündermann, Lars Navab, Nassir Onogur, Sinan Sznitman, Raphael Taylor, Russell H. Tizabi, Minu D. Wagner, Martin Hager, Gregory D. Neumuth, Thomas Padoy, Nicolas Collins, Justin Gockel, Ines Goedeke, Jan Hashimoto, Daniel A. Joyeux, Luc Lam, Kyle Leff, Daniel R. Madani, Amin Marcus, Hani J. Meireles, Ozanan Seitel, Alexander Teber, Dogu Ückert, Frank Müller-Stich, Beat P. Jannin, Pierre Speidel, Stefanie Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Medical Faculty Heidelberg University Heidelberg Germany Department of Computer Engineering Faculty of Engineering Gazi University Ankara Turkey LTSI Inserm UMR 1099 University of Rennes 1 Rennes France IRCAD Strasbourg France The Malone Center for Engineering in Healthcare The Johns Hopkins University BaltimoreMD United States KARL STORZ SE and Co. KG Tuttlingen Germany Department of Surgery Klinikum Rechts der Isar Technical University of Munich Munich Germany The Hamlyn Centre for Robotic Surgery Imperial College London London United Kingdom ICube University of Strasbourg CNRS France IHU Strasbourg Strasbourg France Altair Robotics Lab University of Verona Verona Italy Department of Surgery Anne Arundel Health System AnnapolisMD United States Johns Hopkins University School of Medicine BaltimoreMD United States Department of Surgery Stanford University School of Medicine StanfordCA United States Wellcome/EPSRC Centre for Interventional and Surgical Sciences University College London London United Kingdom Department for General Visceral and Transplantation Surgery Heidelberg University Hospital Heidelberg Germany The Sheikh Zayed Institute for Pediatric Surgical Innovation Children's National Hospital WashingtonDC United States The Perk Lab Queen's University KingstonON Canada University of Haute-Alsace Mulhouse France Faculty of Information Technology Monash University ClaytonVIC Australia University of Toronto TorontoON Canada The Li Ka Shing Knowledge Institute of St. Michael's Hospital TorontoON Canada Kyushu University Fukuoka Japan Kitakyushu Koga Hospital Fukuoka Japan Department of Radiology Brigham and Women's Hospital Harvard Medical School BostonMA United States Computer Aided Medical Procedures Technical University of Munich Munich Germany Department of Computer Science The Johns Hopkins University Baltim

Recent developments in data science in general and machine learning in particular have transformed the way experts envision the future of surgery. Surgical Data science (SDS) is a new research field that aims to improve the quality of interventional healthcare through the capture, organization, analysis and modeling of data. While an increasing number of data-driven approaches and clinical applications have been studied in the fields of radiological and clinical data science, translational success stories are still lacking in surgery. In this publication, we shed light on the underlying reasons and provide a roadmap for future advances in the field. Based on an international workshop involving leading researchers in the field of SDS, we review current practice, key achievements and initiatives as well as available standards and tools for a number of topics relevant to the field, namely (1) infrastructure for data acquisition, storage and access in the presence of regulatory constraints, (2) data annotation and sharing and (3) data analytics. We further complement this technical perspective with (4) a review of currently available SDS products and the translational progress from academia and (5) a roadmap for faster clinical translation and exploitation of the full potential of SDS, based on an international multi-round Delphi process. © 2020, CC BY.

关键词： Deep learning

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Query-focused video summarization: Dataset, evaluation, and a memory network based approach

arXiv

引用

arXiv 2017年

作者： Sharghi, Aidean Laurel, Jacob S. Gong, Boqing Center for Research in Computer Vision University of Central Florida OrlandoFL32816 Department of Computer Science University of Alabama at Birmingham AL35294

Recent years have witnessed a resurgence of interest in video summarization. However, one of the main obstacles to the research on video summarization is the user subjectivity — users have various preferences over the summaries. The subjectiveness causes at least two problems. First, no single video summarizer fits all users unless it interacts with and adapts to the individual users. Second, it is very challenging to evaluate the performance of a video summarizer. To tackle the first problem, we explore the recently proposed query-focused video summarization which introduces user preferences in the form of text queries about the video into the summarization process. We propose a memory network parameterized sequential determinantal point process in order to attend the user query onto different video frames and shots. To address the second challenge, we contend that a good evaluation metric for video summarization should focus on the semantic information that humans can perceive rather than the visual features or temporal overlaps. To this end, we collect dense per-video-shot concept annotations, compile a new dataset, and suggest an efficient evaluation method defined upon the concept annotations. We conduct extensive experiments contrasting our video summarizer to existing ones and present detailed analyses about the dataset and the new evaluation method. Copyright © 2017, The Authors. All rights reserved.

关键词： Video recording

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Investigating Natural Image Pleasantness Recognition using Deep Features and Eye Tracking for Loosely Controlled Human–computer Interaction

arXiv

引用

arXiv 2017年

作者： Tavakolia, Hamed R. Laaksonen, Jorma Rahtu, Esa Department of computer science Aalto University Espoo Finland Center for machine vision research University of Oulu Finland

This paper revisits recognition of natural image pleasantness by employing deep convolutional neural networks and affordable eye trackers. There exist several approaches to recognize image pleasantness: (1) computer vision, and (2) psychophysical signals. For natural images, computer vision approaches have not been as successful as for abstract paintings and is lagging behind the psychophysical signals like eye movements. Despite better results, the scalability of eye movements is adversely affected by the sensor cost. While the introduction of affordable sensors have helped the scalability issue by making the sensors more accessible, the application of such sensors in a loosely controlled human-computer interaction setup is not yet studied for affective image tagging. On the other hand, deep convolutional neural networks have boosted the performance of vision-based techniques significantly in recent years. To investigate the current status in regard to affective image tagging, we (1) introduce a new eye movement dataset using an affordable eye tracker, (2) study the use of deep neural networks for pleasantness recognition, (3) investigate the gap between deep features and eye movements. To meet these ends, we record eye movements in a less controlled setup, akin to daily human-computer interaction. We assess features from eye movements, visual features, and their combination. Our results show that (1) recognizing natural image pleasantness from eye movement under less restricted setup is difficult and previously used techniques are prone to fail, and (2) visual class categories are strong cues for predicting pleasantness, due to their correlation with emotions, necessitating careful study of this phenomenon. This latter finding is alerting as some deep learning approaches may fit to the class category bias. Copyright © 2017, The Authors. All rights reserved.

关键词： Eye tracking

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