1 code implementation • 22 Apr 2024 • Yuyang Sheng, Sophia Bano, Matthew J. Clarkson, Mobarakol Islam
We utilise a commonly used detection architecture, DETR, and fine-tuned it to obtain bounding box prompt for the instruments.
2 code implementations • 9 Apr 2024 • Sierra Bonilla, Shuai Zhang, Dimitrios Psychogyios, Danail Stoyanov, Francisco Vasconcelos, Sophia Bano
Within colorectal cancer diagnostics, conventional colonoscopy techniques face critical limitations, including a limited field of view and a lack of depth information, which can impede the detection of precancerous lesions.
Novel View Synthesis Simultaneous Localization and Mapping +1
no code implementations • 15 Feb 2024 • Sanskar Amgain, Prashant Shrestha, Sophia Bano, Ignacio del Valle Torres, Michael Cunniffe, Victor Hernandez, Phil Beales, Binod Bhattarai
Purpose: We apply federated learning to train an OCT image classifier simulating a realistic scenario with multiple clients and statistical heterogeneous data distribution where data in the clients lack samples of some categories entirely.
1 code implementation • 20 Jul 2023 • Anita Rau, Sophia Bano, Yueming Jin, Pablo Azagra, Javier Morlana, Edward Sanderson, Bogdan J. Matuszewski, Jae Young Lee, Dong-Jae Lee, Erez Posner, Netanel Frank, Varshini Elangovan, Sista Raviteja, Zhengwen Li, Jiquan Liu, Seenivasan Lalithkumar, Mobarakol Islam, Hongliang Ren, José M. M. Montiel, Danail Stoyanov
We show that depth prediction in virtual colonoscopy is robustly solvable, while pose estimation remains an open research question.
no code implementations • CVPR 2023 • Matthias Eisenmann, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Fabian Isensee, Tim J. Adler, Sharib Ali, Vincent Andrearczyk, Marc Aubreville, Ujjwal Baid, Spyridon Bakas, Niranjan Balu, Sophia Bano, Jorge Bernal, Sebastian Bodenstedt, Alessandro Casella, Veronika Cheplygina, Marie Daum, Marleen de Bruijne, Adrien Depeursinge, Reuben Dorent, Jan Egger, David G. Ellis, Sandy Engelhardt, Melanie Ganz, Noha Ghatwary, Gabriel Girard, Patrick Godau, Anubha Gupta, Lasse Hansen, Kanako Harada, Mattias Heinrich, Nicholas Heller, Alessa Hering, Arnaud Huaulmé, Pierre Jannin, Ali Emre Kavur, Oldřich Kodym, Michal Kozubek, Jianning Li, Hongwei Li, Jun Ma, Carlos Martín-Isla, Bjoern Menze, Alison Noble, Valentin Oreiller, Nicolas Padoy, Sarthak Pati, Kelly Payette, Tim Rädsch, Jonathan Rafael-Patiño, Vivek Singh Bawa, Stefanie Speidel, Carole H. Sudre, Kimberlin Van Wijnen, Martin Wagner, Donglai Wei, Amine Yamlahi, Moi Hoon Yap, Chun Yuan, Maximilian Zenk, Aneeq Zia, David Zimmerer, Dogu Baran Aydogan, Binod Bhattarai, Louise Bloch, Raphael Brüngel, Jihoon Cho, Chanyeol Choi, Qi Dou, Ivan Ezhov, Christoph M. Friedrich, Clifton Fuller, Rebati Raman Gaire, Adrian Galdran, Álvaro García Faura, Maria Grammatikopoulou, SeulGi Hong, Mostafa Jahanifar, Ikbeom Jang, Abdolrahim Kadkhodamohammadi, Inha Kang, Florian Kofler, Satoshi Kondo, Hugo Kuijf, Mingxing Li, Minh Huan Luu, Tomaž Martinčič, Pedro Morais, Mohamed A. Naser, Bruno Oliveira, David Owen, Subeen Pang, Jinah Park, Sung-Hong Park, Szymon Płotka, Elodie Puybareau, Nasir Rajpoot, Kanghyun Ryu, Numan Saeed, Adam Shephard, Pengcheng Shi, Dejan Štepec, Ronast Subedi, Guillaume Tochon, Helena R. Torres, Helene Urien, João L. Vilaça, Kareem Abdul Wahid, Haojie Wang, Jiacheng Wang, Liansheng Wang, Xiyue Wang, Benedikt Wiestler, Marek Wodzinski, Fangfang Xia, Juanying Xie, Zhiwei Xiong, Sen yang, Yanwu Yang, Zixuan Zhao, Klaus Maier-Hein, Paul F. Jäger, Annette Kopp-Schneider, Lena Maier-Hein
The "typical" lead of a winning team is a computer scientist with a doctoral degree, five years of experience in biomedical image analysis, and four years of experience in deep learning.
1 code implementation • 6 Feb 2023 • Joao Cartucho, Alistair Weld, Samyakh Tukra, Haozheng Xu, Hiroki Matsuzaki, Taiyo Ishikawa, Minjun Kwon, Yong Eun Jang, Kwang-Ju Kim, Gwang Lee, Bizhe Bai, Lueder Kahrs, Lars Boecking, Simeon Allmendinger, Leopold Muller, Yitong Zhang, Yueming Jin, Sophia Bano, Francisco Vasconcelos, Wolfgang Reiter, Jonas Hajek, Bruno Silva, Estevao Lima, Joao L. Vilaca, Sandro Queiros, Stamatia Giannarou
This assessment uses benchmarking metrics that were purposely developed for this challenge, to verify the efficacy of unsupervised deep learning algorithms in tracking soft-tissue.
no code implementations • 16 Dec 2022 • Matthias Eisenmann, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Fabian Isensee, Tim J. Adler, Patrick Godau, Veronika Cheplygina, Michal Kozubek, Sharib Ali, Anubha Gupta, Jan Kybic, Alison Noble, Carlos Ortiz de Solórzano, Samiksha Pachade, Caroline Petitjean, Daniel Sage, Donglai Wei, Elizabeth Wilden, Deepak Alapatt, Vincent Andrearczyk, Ujjwal Baid, Spyridon Bakas, Niranjan Balu, Sophia Bano, Vivek Singh Bawa, Jorge Bernal, Sebastian Bodenstedt, Alessandro Casella, Jinwook Choi, Olivier Commowick, Marie Daum, Adrien Depeursinge, Reuben Dorent, Jan Egger, Hannah Eichhorn, Sandy Engelhardt, Melanie Ganz, Gabriel Girard, Lasse Hansen, Mattias Heinrich, Nicholas Heller, Alessa Hering, Arnaud Huaulmé, Hyunjeong Kim, Bennett Landman, Hongwei Bran Li, Jianning Li, Jun Ma, Anne Martel, Carlos Martín-Isla, Bjoern Menze, Chinedu Innocent Nwoye, Valentin Oreiller, Nicolas Padoy, Sarthak Pati, Kelly Payette, Carole Sudre, Kimberlin Van Wijnen, Armine Vardazaryan, Tom Vercauteren, Martin Wagner, Chuanbo Wang, Moi Hoon Yap, Zeyun Yu, Chun Yuan, Maximilian Zenk, Aneeq Zia, David Zimmerer, Rina Bao, Chanyeol Choi, Andrew Cohen, Oleh Dzyubachyk, Adrian Galdran, Tianyuan Gan, Tianqi Guo, Pradyumna Gupta, Mahmood Haithami, Edward Ho, Ikbeom Jang, Zhili Li, Zhengbo Luo, Filip Lux, Sokratis Makrogiannis, Dominik Müller, Young-tack Oh, Subeen Pang, Constantin Pape, Gorkem Polat, Charlotte Rosalie Reed, Kanghyun Ryu, Tim Scherr, Vajira Thambawita, Haoyu Wang, Xinliang Wang, Kele Xu, Hung Yeh, Doyeob Yeo, Yixuan Yuan, Yan Zeng, Xin Zhao, Julian Abbing, Jannes Adam, Nagesh Adluru, Niklas Agethen, Salman Ahmed, Yasmina Al Khalil, Mireia Alenyà, Esa Alhoniemi, Chengyang An, Talha Anwar, Tewodros Weldebirhan Arega, Netanell Avisdris, Dogu Baran Aydogan, Yingbin Bai, Maria Baldeon Calisto, Berke Doga Basaran, Marcel Beetz, Cheng Bian, Hao Bian, Kevin Blansit, Louise Bloch, Robert Bohnsack, Sara Bosticardo, Jack Breen, Mikael Brudfors, Raphael Brüngel, Mariano Cabezas, Alberto Cacciola, Zhiwei Chen, Yucong Chen, Daniel Tianming Chen, Minjeong Cho, Min-Kook Choi, Chuantao Xie Chuantao Xie, Dana Cobzas, Julien Cohen-Adad, Jorge Corral Acero, Sujit Kumar Das, Marcela de Oliveira, Hanqiu Deng, Guiming Dong, Lars Doorenbos, Cory Efird, Sergio Escalera, Di Fan, Mehdi Fatan Serj, Alexandre Fenneteau, Lucas Fidon, Patryk Filipiak, René Finzel, Nuno R. Freitas, Christoph M. Friedrich, Mitchell Fulton, Finn Gaida, Francesco Galati, Christoforos Galazis, Chang Hee Gan, Zheyao Gao, Shengbo Gao, Matej Gazda, Beerend Gerats, Neil Getty, Adam Gibicar, Ryan Gifford, Sajan Gohil, Maria Grammatikopoulou, Daniel Grzech, Orhun Güley, Timo Günnemann, Chunxu Guo, Sylvain Guy, Heonjin Ha, Luyi Han, Il Song Han, Ali Hatamizadeh, Tian He, Jimin Heo, Sebastian Hitziger, SeulGi Hong, Seungbum Hong, Rian Huang, Ziyan Huang, Markus Huellebrand, Stephan Huschauer, Mustaffa Hussain, Tomoo Inubushi, Ece Isik Polat, Mojtaba Jafaritadi, SeongHun Jeong, Bailiang Jian, Yuanhong Jiang, Zhifan Jiang, Yueming Jin, Smriti Joshi, Abdolrahim Kadkhodamohammadi, Reda Abdellah Kamraoui, Inha Kang, Junghwa Kang, Davood Karimi, April Khademi, Muhammad Irfan Khan, Suleiman A. Khan, Rishab Khantwal, Kwang-Ju Kim, Timothy Kline, Satoshi Kondo, Elina Kontio, Adrian Krenzer, Artem Kroviakov, Hugo Kuijf, Satyadwyoom Kumar, Francesco La Rosa, Abhi Lad, Doohee Lee, Minho Lee, Chiara Lena, Hao Li, Ling Li, Xingyu Li, Fuyuan Liao, Kuanlun Liao, Arlindo Limede Oliveira, Chaonan Lin, Shan Lin, Akis Linardos, Marius George Linguraru, Han Liu, Tao Liu, Di Liu, Yanling Liu, João Lourenço-Silva, Jingpei Lu, Jiangshan Lu, Imanol Luengo, Christina B. Lund, Huan Minh Luu, Yi Lv, Uzay Macar, Leon Maechler, Sina Mansour L., Kenji Marshall, Moona Mazher, Richard McKinley, Alfonso Medela, Felix Meissen, Mingyuan Meng, Dylan Miller, Seyed Hossein Mirjahanmardi, Arnab Mishra, Samir Mitha, Hassan Mohy-ud-Din, Tony Chi Wing Mok, Gowtham Krishnan Murugesan, Enamundram Naga Karthik, Sahil Nalawade, Jakub Nalepa, Mohamed Naser, Ramin Nateghi, Hammad Naveed, Quang-Minh Nguyen, Cuong Nguyen Quoc, Brennan Nichyporuk, Bruno Oliveira, David Owen, Jimut Bahan Pal, Junwen Pan, Wentao Pan, Winnie Pang, Bogyu Park, Vivek Pawar, Kamlesh Pawar, Michael Peven, Lena Philipp, Tomasz Pieciak, Szymon Plotka, Marcel Plutat, Fattaneh Pourakpour, Domen Preložnik, Kumaradevan Punithakumar, Abdul Qayyum, Sandro Queirós, Arman Rahmim, Salar Razavi, Jintao Ren, Mina Rezaei, Jonathan Adam Rico, ZunHyan Rieu, Markus Rink, Johannes Roth, Yusely Ruiz-Gonzalez, Numan Saeed, Anindo Saha, Mostafa Salem, Ricardo Sanchez-Matilla, Kurt Schilling, Wei Shao, Zhiqiang Shen, Ruize Shi, Pengcheng Shi, Daniel Sobotka, Théodore Soulier, Bella Specktor Fadida, Danail Stoyanov, Timothy Sum Hon Mun, Xiaowu Sun, Rong Tao, Franz Thaler, Antoine Théberge, Felix Thielke, Helena Torres, Kareem A. Wahid, Jiacheng Wang, Yifei Wang, Wei Wang, Xiong Wang, Jianhui Wen, Ning Wen, Marek Wodzinski, Ye Wu, Fangfang Xia, Tianqi Xiang, Chen Xiaofei, Lizhan Xu, Tingting Xue, Yuxuan Yang, Lin Yang, Kai Yao, Huifeng Yao, Amirsaeed Yazdani, Michael Yip, Hwanseung Yoo, Fereshteh Yousefirizi, Shunkai Yu, Lei Yu, Jonathan Zamora, Ramy Ashraf Zeineldin, Dewen Zeng, Jianpeng Zhang, Bokai Zhang, Jiapeng Zhang, Fan Zhang, Huahong Zhang, Zhongchen Zhao, Zixuan Zhao, Jiachen Zhao, Can Zhao, Qingshuo Zheng, Yuheng Zhi, Ziqi Zhou, Baosheng Zou, Klaus Maier-Hein, Paul F. Jäger, Annette Kopp-Schneider, Lena Maier-Hein
Of these, 84% were based on standard architectures.
no code implementations • 1 Aug 2022 • Yitong Zhang, Sophia Bano, Ann-Sophie Page, Jan Deprest, Danail Stoyanov, Francisco Vasconcelos
In minimally invasive surgery, surgical workflow segmentation from video analysis is a well studied topic.
no code implementations • 26 Jul 2022 • Alessandro Casella, Sophia Bano, Francisco Vasconcelos, Anna L. David, Dario Paladini, Jan Deprest, Elena De Momi, Leonardo S. Mattos, Sara Moccia, Danail Stoyanov
This surgery is minimally invasive and relies on fetoscopy.
no code implementations • 29 Jun 2022 • Netanell Avisdris, Leo Joskowicz, Brian Dromey, Anna L. David, Donald M. Peebles, Danail Stoyanov, Dafna Ben Bashat, Sophia Bano
Comparison and cross-validation of three different biometric measurements on two independent datasets shows that BiometryNet is robust and yields accurate measurements whose errors are lower than the clinically permissible errors, outperforming other existing automated biometry estimation methods.
1 code implementation • 24 Jun 2022 • Sophia Bano, Alessandro Casella, Francisco Vasconcelos, Abdul Qayyum, Abdesslam Benzinou, Moona Mazher, Fabrice Meriaudeau, Chiara Lena, Ilaria Anita Cintorrino, Gaia Romana De Paolis, Jessica Biagioli, Daria Grechishnikova, Jing Jiao, Bizhe Bai, Yanyan Qiao, Binod Bhattarai, Rebati Raman Gaire, Ronast Subedi, Eduard Vazquez, Szymon Płotka, Aneta Lisowska, Arkadiusz Sitek, George Attilakos, Ruwan Wimalasundera, Anna L David, Dario Paladini, Jan Deprest, Elena De Momi, Leonardo S Mattos, Sara Moccia, Danail Stoyanov
For this challenge, we released a dataset of 2060 images, pixel-annotated for vessels, tool, fetus and background classes, from 18 in-vivo TTTS fetoscopy procedures and 18 short video clips.
no code implementations • 13 Jun 2022 • Antonio S Soares, Sophia Bano, Neil T Clancy, Laurence B Lovat, Danail Stoyanov, Manish Chand
A decision boundary was identified based on the tissue classification.
1 code implementation • International Journal of Computer Assisted Radiology and Surgery 2022 • Yirou Pan, Sophia Bano, Francisco Vasconcelos, Hyun Park, Taikyeong Ted. Jeong, Danail Stoyanov
Robotic-assisted laparoscopic surgery has become the trend in medicine thanks to its convenience and lower risk of infection against traditional open surgery.
no code implementations • 21 Oct 2021 • Imanol Luengo, Maria Grammatikopoulou, Rahim Mohammadi, Chris Walsh, Chinedu Innocent Nwoye, Deepak Alapatt, Nicolas Padoy, Zhen-Liang Ni, Chen-Chen Fan, Gui-Bin Bian, Zeng-Guang Hou, Heonjin Ha, Jiacheng Wang, Haojie Wang, Dong Guo, Lu Wang, Guotai Wang, Mobarakol Islam, Bharat Giddwani, Ren Hongliang, Theodoros Pissas, Claudio Ravasio, Martin Huber, Jeremy Birch, Joan M. Nunez Do Rio, Lyndon Da Cruz, Christos Bergeles, Hongyu Chen, Fucang Jia, Nikhil KumarTomar, Debesh Jha, Michael A. Riegler, Pal Halvorsen, Sophia Bano, Uddhav Vaghela, Jianyuan Hong, Haili Ye, Feihong Huang, Da-Han Wang, Danail Stoyanov
In 2020, we released pixel-wise semantic annotations for anatomy and instruments for 4670 images sampled from 25 videos of the CATARACTS training set.
no code implementations • 12 Jul 2021 • Sophia Bano, Brian Dromey, Francisco Vasconcelos, Raffaele Napolitano, Anna L. David, Donald M. Peebles, Danail Stoyanov
To achieve a reproducible and accurate measurement, a sonographer needs to identify three standard 2D planes of the fetal anatomy (head, abdomen, femur) and manually mark the key anatomical landmarks on the image for accurate biometry and fetal weight estimation.
1 code implementation • 10 Jun 2021 • Sophia Bano, Alessandro Casella, Francisco Vasconcelos, Sara Moccia, George Attilakos, Ruwan Wimalasundera, Anna L. David, Dario Paladini, Jan Deprest, Elena De Momi, Leonardo S. Mattos, Danail Stoyanov
Through the \textit{Fetoscopic Placental Vessel Segmentation and Registration (FetReg)} challenge, we present a large-scale multi-centre dataset for the development of generalized and robust semantic segmentation and video mosaicking algorithms for the fetal environment with a focus on creating drift-free mosaics from long duration fetoscopy videos.
no code implementations • 12 Oct 2020 • Sharib Ali, Mariia Dmitrieva, Noha Ghatwary, Sophia Bano, Gorkem Polat, Alptekin Temizel, Adrian Krenzer, Amar Hekalo, Yun Bo Guo, Bogdan Matuszewski, Mourad Gridach, Irina Voiculescu, Vishnusai Yoganand, Arnav Chavan, Aryan Raj, Nhan T. Nguyen, Dat Q. Tran, Le Duy Huynh, Nicolas Boutry, Shahadate Rezvy, Haijian Chen, Yoon Ho Choi, Anand Subramanian, Velmurugan Balasubramanian, Xiaohong W. Gao, Hongyu Hu, Yusheng Liao, Danail Stoyanov, Christian Daul, Stefano Realdon, Renato Cannizzaro, Dominique Lamarque, Terry Tran-Nguyen, Adam Bailey, Barbara Braden, James East, Jens Rittscher
The Endoscopy Computer Vision Challenge (EndoCV) is a crowd-sourcing initiative to address eminent problems in developing reliable computer aided detection and diagnosis endoscopy systems and suggest a pathway for clinical translation of technologies.
1 code implementation • 8 Jul 2020 • Sophia Bano, Francisco Vasconcelos, Luke M. Shepherd, Emmanuel Vander Poorten, Tom Vercauteren, Sebastien Ourselin, Anna L. David, Jan Deprest, Danail Stoyanov
We propose a solution utilising the U-Net architecture for performing placental vessel segmentation in fetoscopic videos.
3 code implementations • 30 Jan 2020 • Max Allan, Satoshi Kondo, Sebastian Bodenstedt, Stefan Leger, Rahim Kadkhodamohammadi, Imanol Luengo, Felix Fuentes, Evangello Flouty, Ahmed Mohammed, Marius Pedersen, Avinash Kori, Varghese Alex, Ganapathy Krishnamurthi, David Rauber, Robert Mendel, Christoph Palm, Sophia Bano, Guinther Saibro, Chi-Sheng Shih, Hsun-An Chiang, Juntang Zhuang, Junlin Yang, Vladimir Iglovikov, Anton Dobrenkii, Madhu Reddiboina, Anubhav Reddy, Xingtong Liu, Cong Gao, Mathias Unberath, Myeonghyeon Kim, Chanho Kim, Chaewon Kim, Hye-Jin Kim, Gyeongmin Lee, Ihsan Ullah, Miguel Luna, Sang Hyun Park, Mahdi Azizian, Danail Stoyanov, Lena Maier-Hein, Stefanie Speidel
In 2015 we began a sub-challenge at the EndoVis workshop at MICCAI in Munich using endoscope images of ex-vivo tissue with automatically generated annotations from robot forward kinematics and instrument CAD models.
1 code implementation • 15 Jul 2019 • Sophia Bano, Francisco Vasconcelos, Marcel Tella Amo, George Dwyer, Caspar Gruijthuijsen, Jan Deprest, Sebastien Ourselin, Emmanuel Vander Poorten, Tom Vercauteren, Danail Stoyanov
Mosaicking can align multiple overlapping images to generate an image with increased FoV, however, existing techniques apply poorly to fetoscopy due to the low visual quality, texture paucity, and hence fail in longer sequences due to the drift accumulated over time.