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ORCIDMichal Kozubek 0001
Person information
- affiliation: Masaryk University, Brno, Czech Republic
Other persons with the same name
- Michal Kozubek 0002 — Institute of Atmospheric Physics CAS, Prague, Czech Republic
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2020 – today
- 2024
[c21]Nikomidisz Eftimiu, Michal Kozubek:
Gravitational Cell Detection and Tracking in Fluorescence Microscopy Data. ISBI 2024: 1-5- [c20]Roman Stoklasa, Ioannis Stathopoulos, Efstratios Karavasilis, Efstathios Efstathopoulos, Marek Dostál, Milos Kerkovský, Michal Kozubek, Luigi Serio:
Brain MRI Screening Tool with Federated Learning. ISBI 2024: 1-5 - 2023
- [c19]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 M. Ghatwary, Gabriel Girard, Patrick Godau, Anubha Gupta, Lasse Hansen, Kanako Harada, Mattias P. Heinrich, Nicholas Heller, Alessa Hering, Arnaud Huaulmé, Pierre Jannin, A. Emre Kavur, Oldrich Kodym, Michal Kozubek, Jianning Li, Hongwei Bran Li, Jun Ma, Carlos Martín-Isla, Bjoern H. Menze, J. Alison Noble, Valentin Oreiller, Nicolas Padoy, Sarthak Pati, Kelly Payette, Tim Rädsch, Jonathan Rafael-Patino, Vivek Singh Bawa, Stefanie Speidel, Carole H. Sudre, Kimberlin M. H. van Wijnen, Martin Wagner, D. Wei, Amine Yamlahi, Moi Hoon Yap, C. Yuan, Maximilian Zenk, A. Zia, David Zimmerer, Dogu Baran Aydogan, Binod Bhattarai, Louise Bloch, Raphael Brüngel, J. Cho, C. Choi, Q. Dou, Ivan Ezhov, Christoph M. Friedrich, C. Fuller, Rebati Raman Gaire, Adrian Galdran, Álvaro García-Faura, Maria Grammatikopoulou, S. Hong, Mostafa Jahanifar, I. Jang, Abdolrahim Kadkhodamohammadi, I. Kang, Florian Kofler, S. Kondo, Hugo Jaco Kuijf, M. Li, M. Luu, Tomaz Martincic, Pedro Morais, Mohamed A. Naser, Bruno Oliveira, David Owen, S. Pang, J. Park, S. Park, Szymon Plotka, Élodie Puybareau, Nasir M. Rajpoot, K. Ryu, Numan Saeed, Adam Shephard, Pengcheng Shi, Dejan Stepec, Ronast Subedi, Guillaume Tochon, Helena R. Torres, Hélène Urien, João L. Vilaça, Kareem A. Wahid, H. Wang, J. Wang, L. Wang, X. Wang, Benedikt Wiestler, Marek Wodzinski, F. Xia, J. Xie, Z. Xiong, S. Yang, Y. Yang, Z. Zhao, Klaus H. Maier-Hein, Paul F. Jäger, Annette Kopp-Schneider, Lena Maier-Hein:
Why is the Winner the Best? CVPR 2023: 19955-19966 - [i9]Annika Reinke, Minu Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Carole H. Sudre, Laura Ación, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Matthew B. Blaschko, Florian Büttner, M. Jorge Cardoso, Veronika Cheplygina, Jianxu Chen, Evangelia Christodoulou, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Ben Glocker, Patrick Godau, Robert Haase, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Jens Kleesiek, Florian Kofler, Thijs Kooi, Annette Kopp-Schneider, Michal Kozubek, Anna Kreshuk, Tahsin M. Kurç, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus H. Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern H. Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Susanne M. Rafelski, Nasir M. Rajpoot, Mauricio Reyes, Michael A. Riegler, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Maarten van Smeden, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Manuel Wiesenfarth, Ziv R. Yaniv, Paul F. Jäger, Lena Maier-Hein:
Understanding metric-related pitfalls in image analysis validation. CoRR abs/2302.01790 (2023) - [i8]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 M. Ghatwary, Gabriel Girard, Patrick Godau, Anubha Gupta, Lasse Hansen, Kanako Harada, Mattias P. Heinrich, Nicholas Heller, Alessa Hering, Arnaud Huaulmé, Pierre Jannin, Ali Emre Kavur, Oldrich Kodym, Michal Kozubek, Jianning Li, Hongwei Bran Li, Jun Ma, Carlos Martín-Isla, Bjoern H. Menze, J. Alison Noble, Valentin Oreiller, Nicolas Padoy, Sarthak Pati, Kelly Payette, Tim Rädsch, et al.:
Why is the winner the best? CoRR abs/2303.17719 (2023) - [i7]Roman Stoklasa, Ioannis Stathopoulos, Efstratios Karavasilis, Efstathios P. Efstathopoulos, Marek Dostál, Milos Kerkovský, Michal Kozubek, Luigi Serio:
Brain MRI Screening Tool with Federated Learning. CoRR abs/2311.14086 (2023) - [i6]Nikomidisz Eftimiu, Michal Kozubek:
Gravitational cell detection and tracking in fluorescence microscopy data. CoRR abs/2312.03509 (2023) - 2022
- [i5]Lena Maier-Hein, Annika Reinke, Evangelia Christodoulou, Ben Glocker, Patrick Godau, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Minu Dietlinde Tizabi, Laura Ación, Michela Antonelli, Tal Arbel, Spyridon Bakas, Peter Bankhead, Arriel Benis, M. Jorge Cardoso, Veronika Cheplygina, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Bram van Ginneken, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Pierre Jannin, Charles E. Kahn, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Annette Kopp-Schneider, Anna Kreshuk, Tahsin M. Kurç, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus H. Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern H. Menze, David Moher, Karel G. M. Moons, Henning Müller, Felix Nickel, Brennan Nichyporuk, Jens Petersen, Nasir M. Rajpoot, Nicola Rieke, Julio Saez-Rodriguez, Clarisa Sánchez Gutiérrez, Shravya Shetty, Maarten van Smeden, Carole H. Sudre, Ronald M. Summers, Abdel A. Taha, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Paul F. Jäger:
Metrics reloaded: Pitfalls and recommendations for image analysis validation. CoRR abs/2206.01653 (2022) - [i4]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, J. 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 P. Heinrich, Nicholas Heller, Alessa Hering, Arnaud Huaulmé, Hyunjeong Kim, Bennett A. Landman, Hongwei Bran Li, Jianning Li, Jun Ma, Anne L. Martel, et al.:
Biomedical image analysis competitions: The state of current participation practice. CoRR abs/2212.08568 (2022) - 2021
- [i3]Annika Reinke, Matthias Eisenmann, Minu Dietlinde Tizabi, Carole H. Sudre, Tim Rädsch, Michela Antonelli, Tal Arbel, Spyridon Bakas, M. Jorge Cardoso, Veronika Cheplygina, Keyvan Farahani, Ben Glocker, Doreen Heckmann-Nötzel, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Jens Kleesiek, Tahsin M. Kurç, Michal Kozubek, Bennett A. Landman, Geert Litjens, Klaus H. Maier-Hein, Bjoern H. Menze, Henning Müller, Jens Petersen, Mauricio Reyes, Nicola Rieke, Bram Stieltjes, Ronald M. Summers, Sotirios A. Tsaftaris, Bram van Ginneken, Annette Kopp-Schneider, Paul Jäger, Lena Maier-Hein:
Common Limitations of Image Processing Metrics: A Picture Story. CoRR abs/2104.05642 (2021) - 2020
- [j8]Lena Maier-Hein, Annika Reinke, Michal Kozubek, Anne L. Martel, Tal Arbel, Matthias Eisenmann, Allan Hanbury, Pierre Jannin, Henning Müller, Sinan Onogur, Julio Saez-Rodriguez, Bram van Ginneken, Annette Kopp-Schneider, Bennett A. Landman:
BIAS: Transparent reporting of biomedical image analysis challenges. Medical Image Anal. 66: 101796 (2020) - [c18]Cem Emre Akbas, Michal Kozubek:
Condensed U-Net (Cu-Net): An Improved U-Net Architecture for Cell Segmentation Powered by 4x4 Max-Pooling Layers. ISBI 2020: 446-450
2010 – 2019
- 2019
- [j7]David Wiesner, David Svoboda, Martin Maska, Michal Kozubek:
CytoPacq: a web-interface for simulating multi-dimensional cell imaging. Bioinform. 35(21): 4531-4533 (2019) - [i2]Lena Maier-Hein, Annika Reinke, Michal Kozubek, Anne L. Martel, Tal Arbel, Matthias Eisenmann, Allan Hanbury, Pierre Jannin, Henning Müller, Sinan Onogur, Julio Saez-Rodriguez, Bram van Ginneken, Annette Kopp-Schneider, Bennett A. Landman:
BIAS: Transparent reporting of biomedical image analysis challenges. CoRR abs/1910.04071 (2019) - 2018
- [c17]Cem Emre Akbas, Vladimír Ulman, Martin Maska, Florian Jug, Michal Kozubek:
Automatic Fusion of Segmentation and Tracking Labels. ECCV Workshops (6) 2018: 446-454 - [c16]Annika Reinke, Matthias Eisenmann, Sinan Onogur, Marko Stankovic, Patrick Scholz, Peter M. Full, Hrvoje Bogunovic, Bennett A. Landman, Oskar Maier, Bjoern H. Menze, Gregory C. Sharp, Korsuk Sirinukunwattana, Stefanie Speidel, Fons van der Sommen, Guoyan Zheng, Henning Müller, Michal Kozubek, Tal Arbel, Andrew P. Bradley, Pierre Jannin, Annette Kopp-Schneider, Lena Maier-Hein:
How to Exploit Weaknesses in Biomedical Challenge Design and Organization. MICCAI (4) 2018: 388-395 - [i1]Lena Maier-Hein, Matthias Eisenmann, Annika Reinke, Sinan Onogur, Marko Stankovic, Patrick Scholz, Tal Arbel, Hrvoje Bogunovic, Andrew P. Bradley, Aaron Carass, Carolin Feldmann, Alejandro F. Frangi, Peter M. Full, Bram van Ginneken, Allan Hanbury, Katrin Honauer, Michal Kozubek, Bennett A. Landman, Keno März, Oskar Maier, Klaus H. Maier-Hein, Bjoern H. Menze, Henning Müller, Peter F. Neher, Wiro J. Niessen, Nasir M. Rajpoot, Gregory C. Sharp, Korsuk Sirinukunwattana, Stefanie Speidel, Christian Stock, Danail Stoyanov, Abdel Aziz Taha, Fons van der Sommen, Ching-Wei Wang, Marc-André Weber, Guoyan Zheng, Pierre Jannin, Annette Kopp-Schneider:
Is the winner really the best? A critical analysis of common research practice in biomedical image analysis competitions. CoRR abs/1806.02051 (2018) - 2017
- [j6]Vlad Popovici, Eva Budinska, Ladislav Dusek, Michal Kozubek, Fred Bosman:
Image-based surrogate biomarkers for molecular subtypes of colorectal cancer. Bioinform. 33(13): 2002-2009 (2017) - [c15]David Svoboda, Michal Kozubek:
Multimodal Simulations in Live Cell Imaging. SASHIMI@MICCAI 2017: 89-98 - 2015
- [j5]Arrate Muñoz-Barrutia, Jelena Kovacevic, Michal Kozubek, Erik Meijering, Braham Parvin:
Quantitative Bioimaging: Signal Processing in Light Microscopy [From the Guest Editors]. IEEE Signal Process. Mag. 32(1): 18-19 (2015) - [j4]Carlos Ortiz-de-Solorzano, Arrate Muñoz-Barrutia, Erik Meijering, Michal Kozubek:
Toward a Morphodynamic Model of the Cell: Signal processing for cell modeling. IEEE Signal Process. Mag. 32(1): 20-29 (2015) - [c14]María Anguiano, Carlos Castilla, Martin Maska, Cristina Ederra, Javier Fernández-Marqués, Rafael Peláez, Ana Rouzaut, Arrate Muñoz-Barrutia, Michal Kozubek, Carlos Ortiz-de-Solorzano:
Characterization of the role of collagen network structure and composition in cancer cell migration. EMBC 2015: 8139-8142 - [c13]Martin Maska, Cristina Ederra, Javier Fernández-Marqués, Arrate Muñoz-Barrutia, Michal Kozubek, Carlos Ortiz-de-Solorzano:
Quantification of the 3D collagen network geometry in confocal reflection microscopy. ICIP 2015: 1791-1794 - 2014
- [j3]Martin Maska, Vladimír Ulman, David Svoboda, Pavel Matula, Petr Matula, Cristina Ederra, Ainhoa Urbiola, Tomás España, Subramanian Venkatesan, Deepak M. W. Balak, Pavel Karas, Tereza Bolcková, Markéta Streitová, Craig Carthel, Stefano Coraluppi, Nathalie Harder, Karl Rohr, Klas E. G. Magnusson, Joakim Jaldén, Helen M. Blau, Oleh Dzyubachyk, Pavel Krízek, Guy M. Hagen, David Pastor-Escuredo, Daniel Jimenez-Carretero, María J. Ledesma-Carbayo, Arrate Muñoz-Barrutia, Erik Meijering, Michal Kozubek, Carlos Ortiz-de-Solorzano:
A benchmark for comparison of cell tracking algorithms. Bioinform. 30(11): 1609-1617 (2014) - 2012
- [j2]Ondrej Danek, Pavel Matula, Martin Maska, Michal Kozubek:
Smooth Chan-Vese segmentation via graph cuts. Pattern Recognit. Lett. 33(10): 1405-1410 (2012) - 2011
- [e1]Ludek Matyska, Michal Kozubek, Tomás Vojnar, Pavel Zemcík, David Antos:
Sixth Doctoral Workshop on Mathematical and Engineering Methods in Computer Science, MEMICS 2010, Selected Papers, October 22-24, 2010, Mikulov, Czech Republic. OASIcs 16, Schloss Dagstuhl - Leibniz-Zentrum fuer Informatik, Germany 2011, ISBN 978-3-939897-22-4 [contents] - 2010
- [c12]Martin Maska, Pavel Matula, Ondrej Danek, Michal Kozubek:
A Fast Level Set-Like Algorithm for Region-Based Active Contours. ISVC (3) 2010: 387-396 - [c11]Martin Maska, Pavel Matula, Michal Kozubek:
Simultaneous Tracking of Multiple Objects Using Fast Level Set-Like Algorithm. MEMICS 2010: 69-76
2000 – 2009
- 2009
- [c10]Pavel Matula, Martin Maska, Ondrej Danek, Petr Matula, Michal Kozubek:
Acquiarium: Free Software for the Acquisition and Analysis of 3D Images of Cells in Fluorescence Microscopy. ISBI 2009: 1138-1141 - [c9]Martin Maska, Ondrej Danek, Carlos Ortiz-de-Solorzano, Arrate Muñoz-Barrutia, Michal Kozubek, Ignacio Fernández García:
A Two-Phase Segmentation of Cell Nuclei Using Fast Level Set-Like Algorithms. SCIA 2009: 390-399 - [c8]Ondrej Danek, Pavel Matula, Carlos Ortiz-de-Solorzano, Arrate Muñoz-Barrutia, Martin Maska, Michal Kozubek:
Segmentation of Touching Cell Nuclei Using a Two-Stage Graph Cut Model. SCIA 2009: 410-419 - 2007
- [c7]Martin Maska, Jan Hubený, David Svoboda, Michal Kozubek:
A Comparison of Fast Level Set-Like Algorithms for Image Segmentation in Fluorescence Microscopy. ISVC (2) 2007: 571-581 - 2006
- [j1]Petr Matula, Michal Kozubek, Vladimír Dvorák:
Fast point-based 3-D alignment of live cells. IEEE Trans. Image Process. 15(8): 2388-2396 (2006) - 2004
- [c6]Pavel Matula, Petr Matula, Michal Kozubek, Petr Mejzlík:
High-Resolution Cytometry Network Project: Client/Server System for 3D Optical Microscope Data Storage and Analysis. 3DPVT 2004: 580-583 - [c5]Petr Matula, Michal Kozubek, Pavel Matula:
Applications of Image Registration in Human Genome Research. ECCV Workshops CVAMIA and MMBIA 2004: 376-384 - [c4]Pavel Matula, Jan Hubený, Michal Kozubek:
Fast Marching 3D Reconstruction of Interphase Chromosomes. ECCV Workshops CVAMIA and MMBIA 2004: 385-394 - [c3]Michal Kozubek, Petr Matula, Pavel Matula:
Automated Confocal Microscopy: The Way of Achieving both Quality and Quantity in 3D Image Cytometry. ISBI 2004: 69-72 - 2002
- [c2]Michal Kozubek, Petr Matula, Heinz Eipel, Michael Hausmann:
Automated Multi-view 3D Image Acquisition in Human Genome Research. 3DPVT 2002: 91-98 - [c1]Michal Kozubek, Petr Matula, Pavel Matula, Petr Mejzlík:
High-Resolution Cytometry Network Project: Towards Remote a d Distributed Acquisition, Processing and Visualisation of 3D Image Data in Human Genome Research. 3DPVT 2002: 99-106
Coauthor Index
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