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Kvasir-Instrument: Diagnostic and therapeutic tool segmentation dataset in gastrointestinal endoscopy [article]

Debesh Jha, Sharib Ali, Krister Emanuelsen, Steven A. Hicks, VajiraThambawita, Enrique Garcia-Ceja, Michael A. Riegler, Thomas de Lange, Peter T. Schmidt, Håvard D. Johansen, Dag Johansen, Pål Halvorsen
2020 arXiv   pre-print
Benchmarking using the dataset provides an opportunity for researchers to contribute to the field of automatic endoscopic diagnostic and therapeutic tool segmentation for GI endoscopy.  ...  The qualitative results showed that the model did not work for the images with specularity and the frames with multiple instruments, while the best result for both methods was observed on all other types  ...  Acknowledgements This work is funded in part by the Research Council of Norway, project number 263248 (Privaton) and project number 282315 (AutoCap).  ... 
arXiv:2011.08065v1 fatcat:zuati76txvgmzc6sb3mtajqbwy

Assessing YOLACT++ for real time and robust instance segmentation of medical instruments in endoscopic procedures [article]

Juan Carlos Angeles Ceron, Leonardo Chang, Gilberto Ochoa-Ruiz, Sharib Ali
2021 arXiv   pre-print
Our proposed approach achieves competitive performance compared to the winner ofthe 2019 ROBUST-MIS challenge in terms of robustness scores,obtaining 0.313 MI_DSC and 0.338 MI_NSD, while achieving real-time  ...  In this paper, we propose the addition of attention mechanisms to the YOLACT architecture that allows real-time instance segmentation of instrument with improved accuracy on the ROBUST-MIS dataset.  ...  ACKNOWLEDGMENTS The authors wish to thank the AI Hub and the CIIOT at ITESM for their support for carrying the experiments reported in this paper on their NVIDIA's DGX computer.  ... 
arXiv:2103.15997v2 fatcat:c6dzu6nrnnfrpnxztqiziccb7a

Real-time Instance Segmentation of Surgical Instruments using Attention and Multi-scale Feature Fusion [article]

Juan Carlos Angeles-Ceron, Gilberto Ochoa-Ruiz, Leonardo Chang, Sharib Ali
2021 arXiv   pre-print
The Robust Medical Instrument Segmentation 2019 challenge (ROBUST-MIS) provides more than 10,000 frames with surgical tools in different clinical settings.  ...  Our approach out-performed top team performances in the ROBUST-MIS challenge with over 44% improvement on both area-based metric MI_DSC and distance-based metric MI_NSD.  ...  Acknowledgements The authors would like to thank the AI Hub and the CI-IOT at Tecnologico de Monterrey for their support for carrying the experiments on their NVIDIA's DGX computer.  ... 
arXiv:2111.04911v2 fatcat:wnph3f3oorbnnjluhfbw3qf2gy

How can we learn (more) from challenges? A statistical approach to driving future algorithm development [article]

Tobias Roß, Pierangela Bruno, Annika Reinke, Manuel Wiesenfarth, Lisa Koeppel, Peter M. Full, Bünyamin Pekdemir, Patrick Godau, Darya Trofimova, Fabian Isensee, Sara Moccia, Francesco Calimeri (+3 others)
2021 arXiv   pre-print
Based on 51,542 meta data annotations performed on 2,728 images, we applied our approach to the results of the Robust Medical Instrument Segmentation Challenge (ROBUST-MIS) challenge 2019 and revealed  ...  To address this gap in the literature, we (1) present a statistical framework for learning from challenges and (2) instantiate it for the specific task of instrument instance segmentation in laparoscopic  ...  Finally, thanks to all authors of the ROBUST-MIS challenge manuscript [39] , which served as foundation of this work.  ... 
arXiv:2106.09302v1 fatcat:zfrygtneyvcv7habomxt4pddze

2021 Scientific Session of the Society of American Gastrointestinal and Endoscopic Surgeons (SAGES), Las Vegas, Nevada, 31 August–3 September 2021

2021 Surgical Endoscopy  
This study examines the profile and outcome of appendectomy in veterans over two decades. Methods: Cases of appendectomy in the VASQIP database between 1999-2019 were identified.  ...  the total number of appendectomies by 70%.  ...  The number of operations, proportion of MIS operations, and complexity of MIS operations were compared.  ... 
doi:10.1007/s00464-021-08748-9 pmid:34734304 pmcid:PMC8565855 fatcat:bhx2qaano5fzffyqfzhwk5mry4

A Review on Deep Learning in Minimally Invasive Surgery

Irene Rivas-Blanco, Carlos J. Perez-Del-Pulgar, Isabel Garcia-Morales, Victor F. Munoz
2021 IEEE Access  
Segmentation (ROBUST-MIS) sub-challenge. of useful information for analyzing metrics related to the motion of the tools.  ...  sub-challenge. 7 Robotic Scene Segmentation sub-challenge. 8 Surgical Workflow Analysis in the SensorOR sub-challenge. 9 Surgical Workflow and Skill Analysis sub-challenge. 10 Robust Medical Instrument  ...  In 2004, he was given a permanent position on the research support staff at the University of Malaga.  ... 
doi:10.1109/access.2021.3068852 fatcat:gfpghqfptzdktlody5z263cdju

Surgical Data Science – from Concepts toward Clinical Translation [article]

Lena Maier-Hein, Matthias Eisenmann, Duygu Sarikaya, Keno März, Toby Collins, Anand Malpani, Johannes Fallert, Hubertus Feussner, Stamatia Giannarou, Pietro Mascagni, Hirenkumar Nakawala, Adrian Park (+38 others)
2021 arXiv   pre-print
exploitation of the full potential of SDS, based on an international multi-round Delphi process.  ...  Recent developments in data science in general and machine learning in particular have transformed the way experts envision the future of surgery.  ...  2018 ENDOSCOPY Endoscopy Disease De- tection and Segmentation (EDD) gastroscopy, gastro- esophageal, colonoscopy in-vivo, human video bounding boxes and segmentation of multi-class disease  ... 
arXiv:2011.02284v2 fatcat:i5mq42uevjfxjmji5xdap3kgse

The Future of Endoscopic Navigation: A Review of Advanced Endoscopic Vision Technology

Zuoming Fu, Ziyi Jin, Chongan Zhang, Zhongyu He, Zhenzhou Zha, Chunyong Hu, Tianyuan Gan, Qinglai Yan, Peng Wang, Xuesong Ye
2021 IEEE Access  
The development of endoscopic vision technologies has resulted in a renewed drive to further develop endoscopic navigation systems.  ...  These techniques help surgeons or surgical robots locate instruments and lesions and expand the field of view of the endoscope.  ...  ACKNOWLEDGMENT The authors thank Dr. Xiao Liang at Sir Run-Run Shaw Hospital, Hangzhou, China, for helping inspire the development of experiments and this article.  ... 
doi:10.1109/access.2021.3065104 fatcat:nprqk4gjhnhbrjvfbrqouoee6y

Robotic Endoscope Control via Autonomous Instrument Tracking [article]

Caspar Gruijthuijsen, Luis C. Garcia-Peraza-Herrera, Gianni Borghesan, Dominiek Reynaerts, Jan Deprest, Sebastien Ourselin, Tom Vercauteren, Emmanuel Vander Poorten
2022 arXiv   pre-print
The clinical relevance of the study is ensured through the use of a laparoscopic exercise validated by the European Academy of Gynaecological Surgery which involves bi-manual coordination and navigation  ...  In addition to the burden of excessively involving surgical staff, this may lead to reduced image stability, increased task completion time and sometimes errors due to the monotony of the task.  ...  Vercauteren is supported by a Medtronic/Royal Academy of Engineering Research Chair [RCSRF1819\7\34].  ... 
arXiv:2107.02317v3 fatcat:tu5gswxbijg63gmtrx5o6ctlmq

Optical Biopsy of the Upper GI Tract Using Fluorescence Lifetime and Spectra

Zhaojun Nie, Shu-Chi Allison Yeh, Michelle LePalud, Fares Badr, Frances Tse, David Armstrong, Louis W. C. Liu, M. Jamal Deen, Qiyin Fang
2020 Frontiers in Physiology  
Our results demonstrated the feasibility of rapid acquisition of time-resolved fluorescence (TRF) spectra from fresh GI mucosal specimens.  ...  In an ex vivo pilot clinical study, we measured fluorescence spectra and lifetime on fresh biopsy specimens obtained during routine upper GI screening procedures.  ...  Of note, the average survival rate is approximately 10-fold higher when the cancer is detected in situ compared to late stage diagnosis (American Cancer Society, 2019).  ... 
doi:10.3389/fphys.2020.00339 pmid:32477151 pmcid:PMC7237753 fatcat:ge4zs5ooubbv7n7lwchhon7o5y

EndoSLAM Dataset and An Unsupervised Monocular Visual Odometry and Depth Estimation Approach for Endoscopic Videos: Endo-SfMLearner [article]

Kutsev Bengisu Ozyoruk, Guliz Irem Gokceler, Gulfize Coskun, Kagan Incetan, Yasin Almalioglu, Faisal Mahmood, Eva Curto, Luis Perdigoto, Marina Oliveira, Hasan Sahin, Helder Araujo, Henrique Alexandrino (+3 others)
2020 arXiv   pre-print
To exemplify the use-case of the EndoSLAM dataset, the performance of Endo-SfMLearner is extensively compared with the state-of-the-art.  ...  The proposed approach makes use of a brightness-aware photometric loss to improve the robustness under fast frame-to-frame illumination changes.  ...  Acknowledgment Mehmet Turan, Kutsev Bengisu Ozyoruk, Guliz Irem Gokceler, Gulfize Coskun, and Kagan Incetan are especially grateful to the Scientific and Technological Research Council of Turkey (TUBITAK  ... 
arXiv:2006.16670v3 fatcat:i4wz6l24g5b6pp56d46ah7bkqm

CARS 2021: Computer Assisted Radiology and Surgery Proceedings of the 35th International Congress and Exhibition Munich, Germany, June 21–25, 2021

2021 International Journal of Computer Assisted Radiology and Surgery  
The University Rovira i Virgili also supports this work with project 2019PFR-B2-61. References  ...  Acknowledgements This work has been funded by the research project PI18/00169 from Instituto de Salud Carlos III & FEDER funds.  ...  Results In a fivefold cross-validation process, all CT-Volumes of the 64 patients were segmented by the presented algorithm. The automatic segmentations are compared to the manual segmentations.  ... 
doi:10.1007/s11548-021-02375-4 pmid:34085172 fatcat:6d564hsv2fbybkhw4wvc7uuxcy

The Impact of Machine Learning on 2D/3D Registration for Image-Guided Interventions: A Systematic Review and Perspective

Mathias Unberath, Cong Gao, Yicheng Hu, Max Judish, Russell H Taylor, Mehran Armand, Robert Grupp
2021 Frontiers in Robotics and AI  
for solving some of the notorious challenges in 2D/3D registration.  ...  A critical component of image guidance is 2D/3D registration, a technique to estimate the spatial relationships between 3D structures, e.g., preoperative volumetric imagery or models of surgical instruments  ...  ACKNOWLEDGMENTS We gratefully acknowledge financial support from NIH NIBIB Trailblazer R21 EB028505, and internal funds of the Malone Center for Engineering in Healthcare at Johns Hopkins University.  ... 
doi:10.3389/frobt.2021.716007 pmid:34527706 pmcid:PMC8436154 fatcat:qphhvllqjndwpmca7he4xd7b3e

CARS 2020—Computer Assisted Radiology and Surgery Proceedings of the 34th International Congress and Exhibition, Munich, Germany, June 23–27, 2020

2020 International Journal of Computer Assisted Radiology and Surgery  
Preface Analogue and Digital CARS 2020 Congress The overarching purpose of the scholarly publication and communication process of IJCARS in the context of the CARS congress could be defined as: "To enable  ...  stimulate complimentary thoughts and actions within the given domain of discourse by all parties involved in the scientific/medical communication process".  ...  Acknowledgements We would like to gratefully thank members in Image-Lab, department of Radiology, the University of Tokyo Hospital. We also thank Dr. Kimura and Dr.  ... 
doi:10.1007/s11548-020-02171-6 pmid:32514840 fatcat:lyhdb2zfpjcqbf4mmbunddwroq

Synthetic Data for Deep Learning [article]

Sergey I. Nikolenko
2019 arXiv   pre-print
In this work, we attempt to provide a comprehensive survey of the various directions in the development and application of synthetic data.  ...  Second, we discuss in detail the synthetic-to-real domain adaptation problem that inevitably arises in applications of synthetic data, including synthetic-to-real refinement with GAN-based models and domain  ...  It supports ROS integration out of the box, has been used in the DARPA Robotics Challenge [9] , NASA Space Robotics Challenge, and others, and has been instrumental for thousands of research and industrial  ... 
arXiv:1909.11512v1 fatcat:qquxnw4dfvgmfeztbpdqhr44gy
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