MedShapeNet -- A Large-Scale Dataset of 3D Medical Shapes for Computer Vision

1 code implementation • 30 Aug 2023 • Jianning Li, Zongwei Zhou, Jiancheng Yang, Antonio Pepe, Christina Gsaxner, Gijs Luijten, Chongyu Qu, Tiezheng Zhang, Xiaoxi Chen, Wenxuan Li, Marek Wodzinski, Paul Friedrich, Kangxian Xie, Yuan Jin, Narmada Ambigapathy, Enrico Nasca, Naida Solak, Gian Marco Melito, Viet Duc Vu, Afaque R. Memon, Christopher Schlachta, Sandrine de Ribaupierre, Rajnikant Patel, Roy Eagleson, Xiaojun Chen, Heinrich Mächler, Jan Stefan Kirschke, Ezequiel de la Rosa, Patrick Ferdinand Christ, Hongwei Bran Li, David G. Ellis, Michele R. Aizenberg, Sergios Gatidis, Thomas Küstner, Nadya Shusharina, Nicholas Heller, Vincent Andrearczyk, Adrien Depeursinge, Mathieu Hatt, Anjany Sekuboyina, Maximilian Löffler, Hans Liebl, Reuben Dorent, Tom Vercauteren, Jonathan Shapey, Aaron Kujawa, Stefan Cornelissen, Patrick Langenhuizen, Achraf Ben-Hamadou, Ahmed Rekik, Sergi Pujades, Edmond Boyer, Federico Bolelli, Costantino Grana, Luca Lumetti, Hamidreza Salehi, Jun Ma, Yao Zhang, Ramtin Gharleghi, Susann Beier, Arcot Sowmya, Eduardo A. Garza-Villarreal, Thania Balducci, Diego Angeles-Valdez, Roberto Souza, Leticia Rittner, Richard Frayne, Yuanfeng Ji, Vincenzo Ferrari, Soumick Chatterjee, Florian Dubost, Stefanie Schreiber, Hendrik Mattern, Oliver Speck, Daniel Haehn, Christoph John, Andreas Nürnberger, João Pedrosa, Carlos Ferreira, Guilherme Aresta, António Cunha, Aurélio Campilho, Yannick Suter, Jose Garcia, Alain Lalande, Vicky Vandenbossche, Aline Van Oevelen, Kate Duquesne, Hamza Mekhzoum, Jef Vandemeulebroucke, Emmanuel Audenaert, Claudia Krebs, Timo Van Leeuwen, Evie Vereecke, Hauke Heidemeyer, Rainer Röhrig, Frank Hölzle, Vahid Badeli, Kathrin Krieger, Matthias Gunzer, Jianxu Chen, Timo van Meegdenburg, Amin Dada, Miriam Balzer, Jana Fragemann, Frederic Jonske, Moritz Rempe, Stanislav Malorodov, Fin H. Bahnsen, Constantin Seibold, Alexander Jaus, Zdravko Marinov, Paul F. Jaeger, Rainer Stiefelhagen, Ana Sofia Santos, Mariana Lindo, André Ferreira, Victor Alves, Michael Kamp, Amr Abourayya, Felix Nensa, Fabian Hörst, Alexander Brehmer, Lukas Heine, Yannik Hanusrichter, Martin Weßling, Marcel Dudda, Lars E. Podleska, Matthias A. Fink, Julius Keyl, Konstantinos Tserpes, Moon-Sung Kim, Shireen Elhabian, Hans Lamecker, Dženan Zukić, Beatriz Paniagua, Christian Wachinger, Martin Urschler, Luc Duong, Jakob Wasserthal, Peter F. Hoyer, Oliver Basu, Thomas Maal, Max J. H. Witjes, Gregor Schiele, Ti-chiun Chang, Seyed-Ahmad Ahmadi, Ping Luo, Bjoern Menze, Mauricio Reyes, Thomas M. Deserno, Christos Davatzikos, Behrus Puladi, Pascal Fua, Alan L. Yuille, Jens Kleesiek, Jan Egger

For the medical domain, we present a large collection of anatomical shapes (e. g., bones, organs, vessels) and 3D models of surgical instrument, called MedShapeNet, created to facilitate the translation of data-driven vision algorithms to medical applications and to adapt SOTA vision algorithms to medical problems.

Anatomy Mixed Reality

RESECT-SEG: Open access annotations of intra-operative brain tumor ultrasound images

no code implementations • 13 Jul 2022 • Bahareh Behboodi, Francois-Xavier Carton, Matthieu Chabanas, Sandrine de Ribaupierre, Ole Solheim, Bodil K. R. Munkvold, Hassan Rivaz, Yiming Xiao, Ingerid Reinertsen

The proposed dataset contains tumor tissues and resection cavity annotations of the iUS images.

MICAL: Mutual Information-Based CNN-Aided Learned Factor

1 code implementation • 6 Jun 2022 • Bahareh Salafian, Eyal Fishel Ben-Knaan, Nir Shlezinger, Sandrine de Ribaupierre, Nariman Farsad

Since the soft estimates obtained as the combined features from the neural MI estimator and the CNN do not capture the temporal correlation between different EEG blocks, we use them not as estimates of the seizure state, but to compute the function nodes of a factor graph.

EEG Seizure Detection

CNN-Aided Factor Graphs with Estimated Mutual Information Features for Seizure Detection

no code implementations • 11 Mar 2022 • Bahareh Salafian, Eyal Fishel Ben-Knaan, Nir Shlezinger, Sandrine de Ribaupierre, Nariman Farsad

We then use a 1D-CNN to extract extra features from the EEG signals and use both features to estimate the probability of a seizure event.~Finally, learned factor graphs are employed to capture the temporal correlation in the signal.

EEG Mutual Information Estimation +1

Efficient Epileptic Seizure Detection Using CNN-Aided Factor Graphs

1 code implementation • 5 Aug 2021 • Bahareh Salafian, Eyal Fishel Ben, Nir Shlezinger, Sandrine de Ribaupierre, Nariman Farsad

We propose a computationally efficient algorithm for seizure detection.

Seizure Detection