PINNing Cerebral Blood Flow: Analysis of Perfusion MRI in Infants using Physics-Informed Neural Networks

1 code implementation • 11 Oct 2024 • Christoforos Galazis, Ching-En Chiu, Tomoki Arichi, Anil A. Bharath, Marta Varela

However, cerebral blood flow (CBF) estimation in infants using ASL remains challenging due to the complex interplay of network physiology, involving dynamic interactions between cardiac output and cerebral perfusion, as well as issues with parameter uncertainty and data noise.

Multi-Tiered Self-Contrastive Learning for Medical Microwave Radiometry (MWR) Breast Cancer Detection

1 code implementation • 6 Oct 2024 • Christoforos Galazis, Huiyi Wu, Igor Goryanin

This study introduces a novel multi-tiered self-contrastive model tailored for microwave radiometry (MWR) in breast cancer detection.

Breast Cancer Detection Contrastive Learning +1

Physics-Informed Neural Networks can accurately model cardiac electrophysiology in 3D geometries and fibrillatory conditions

no code implementations • 18 Sep 2024 • Ching-En Chiu, Aditi Roy, Sarah Cechnicka, Ashvin Gupta, Arieh Levy Pinto, Christoforos Galazis, Kim Christensen, Danilo Mandic, Marta Varela

Physics-Informed Neural Networks (PINNs) are fast becoming an important tool to solve differential equations rapidly and accurately, and to identify the systems parameters that best agree with a given set of measurements.

Rhythm

High-Resolution Maps of Left Atrial Displacements and Strains Estimated with 3D Cine MRI using Online Learning Neural Networks

1 code implementation • 14 Dec 2023 • Christoforos Galazis, Samuel Shepperd, Emma Brouwer, Sandro Queirós, Ebraham Alskaf, Mustafa Anjari, Amedeo Chiribiri, Jack Lee, Anil A. Bharath, Marta Varela

Cine MRI is ideally placed for the detailed 3D characterization of LA motion and deformation but is lacking appropriate acquisition and analysis tools.

Weakly-supervised Learning

High-resolution 3D Maps of Left Atrial Displacements using an Unsupervised Image Registration Neural Network

no code implementations • 5 Sep 2023 • Christoforos Galazis, Anil Anthony Bharath, Marta Varela

Functional analysis of the left atrium (LA) plays an increasingly important role in the prognosis and diagnosis of cardiovascular diseases.

Prognosis Unsupervised Image Registration

Biomedical image analysis competitions: The state of current participation practice

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.

Benchmarking Survey

Tempera: Spatial Transformer Feature Pyramid Network for Cardiac MRI Segmentation

1 code implementation • 1 Mar 2022 • Christoforos Galazis, Huiyi Wu, Zhuoyu Li, Camille Petri, Anil A. Bharath, Marta Varela

For this task, we propose a new multi-input/output architecture, hybrid 2D/3D geometric spatial TransformEr Multi-Pass fEature pyRAmid (Tempera).

MRI segmentation