no code implementations • 30 Aug 2024 • Ashraya K. Indrakanti, Jakob Wasserthal, Martin Segeroth, Shan Yang, Victor Schulze-Zachau, Joshy Cyriac, Michael Bach, Marios Psychogios, Matthias A. Mutke
Purpose: To develop an open-source nnU-Net-based AI model for combined detection and segmentation of unruptured intracranial aneurysms (UICA) in 3D TOF-MRI, and compare models trained on datasets with aneurysm-like differential diagnoses.
1 code implementation • 29 May 2024 • Tugba Akinci D'Antonoli, Lucas K. Berger, Ashraya K. Indrakanti, Nathan Vishwanathan, Jakob Weiß, Matthias Jung, Zeynep Berkarda, Alexander Rau, Marco Reisert, Thomas Küstner, Alexandra Walter, Elmar M. Merkle, Martin Segeroth, Joshy Cyriac, Shan Yang, Jakob Wasserthal
Materials and Methods: In this study we extended the capabilities of TotalSegmentator to MR images.
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.
1 code implementation • 13 Feb 2023 • Francesco Santini, Jakob Wasserthal, Abramo Agosti, Xeni Deligianni, Kevin R. Keene, Hermien E. Kan, Stefan Sommer, Christoph Stuprich, Fengdan Wang, Claudia Weidensteiner, Giulia Manco, Matteo Paoletti, Valentina Mazzoli, Arjun Desai, Anna Pichiecchio
Semantic segmentation is a crucial step to extract quantitative information from medical (and, specifically, radiological) images to aid the diagnostic process, clinical follow-up.
1 code implementation • 11 Aug 2022 • Jakob Wasserthal, Hanns-Christian Breit, Manfred T. Meyer, Maurice Pradella, Daniel Hinck, Alexander W. Sauter, Tobias Heye, Daniel Boll, Joshy Cyriac, Shan Yang, Michael Bach, Martin Segeroth
The model significantly outperformed another publicly available segmentation model on a separate dataset (Dice score, 0. 932 versus 0. 871, respectively).
2 code implementations • 29 Jan 2019 • Jakob Wasserthal, Peter Neher, Dusan Hirjak, Klaus H. Maier-Hein
It is based on a learned mapping from the original fiber orientation distribution function (FOD) peaks to tract specific peaks, called tract orientation maps.
9 code implementations • 27 Sep 2018 • Fabian Isensee, Jens Petersen, Andre Klein, David Zimmerer, Paul F. Jaeger, Simon Kohl, Jakob Wasserthal, Gregor Koehler, Tobias Norajitra, Sebastian Wirkert, Klaus H. Maier-Hein
The U-Net was presented in 2015.
2 code implementations • 14 Jun 2018 • Jakob Wasserthal, Peter F. Neher, Klaus H. Maier-Hein
While the major white matter tracts are of great interest to numerous studies in neuroscience and medicine, their manual dissection in larger cohorts from diffusion MRI tractograms is time-consuming, requires expert knowledge and is hard to reproduce.
3 code implementations • 18 May 2018 • Jakob Wasserthal, Peter Neher, Klaus H. Maier-Hein
The individual course of white matter fiber tracts is an important key for analysis of white matter characteristics in healthy and diseased brains.
no code implementations • 6 Mar 2017 • Jakob Wasserthal, Peter F. Neher, Fabian Isensee, Klaus H. Maier-Hein
We present a novel supervised approach for direct tract segmentation that shows major performance gains.