Journal publications

 

 

2022
Lucas Fidon, Michael Aertsen, Thomas Deprest, Doaa Emam, Frédéric Guffens, Nada Mufti, Esther Van Elslander, Ernst Schwartz, Michael Ebner, Daniela Prayer, Gregor Kasprian, Anna L. David, Andrew Melbourne, Sébastien Ourselin, Jan Deprest, Georg Langs, Tom Vercauteren.
Machine Learning for Biomedical Imaging, 2022
Luca Canalini, Jan Klein, Diana Waldmannstetter, Florian Kofler, Stefano Cerri, Alessa Hering, Stefan Heldmann, Sarah Schlaeger, Bjoern Menze, Benedikt Wiestler, Jan Kirschke, Horst Hahn.
Frontiers in Neuroimaging, 2022
Sveinn Pálsson, Stefano Cerri, Hans Skovgaard Poulsen, Thomas Urup, Ian Law, Koen Van Leemput.
Scientific Reports, 2022
Andrey Zhylka, Alexander Leemans, Josien P. W. Pluim, Alberto De Luca.
Magnetic Resonance Materials in Physics, Biology and Medicine, 2022
Ezhov, Ivan, Mot, Tudor, Shit, Suprosanna, Lipkova, Jana, Paetzold, Johannes C., Kofler, Florian, Navarro, Fernando, Pellegrini, Chantal, Kollovieh, Marcel, Metz, Marie, Wiestler, Benedikt, Menze, Bjoern.
IEEE Transactions on Medical Imaging, 2022
Ivan Ezhov, Kevin Scibilia, Katharina Franitza, Felix Steinbauer, Suprosanna Shit, Lucas Zimmer, Jana Lipkova, Florian Kofler, Johannes Paetzold, Luca Canalini, Diana Waldmannstetter, Martin Menten, Marie Metz, Benedikt Wiestler, Bjoern Menze.
Medical Image Analysis, 2022
S. Shit, J. Zimmermann, I. Ezhov, J. Paetzold, A. F. Sanches, C. Pirkl, and B. H. Menze.
Frontiers in Artificial Intelligence, 2022
Hélène Lajous, Christopher W. Roy, Tom Hilbert, Priscille de Dumast, Sébastien Tourbier, Yasser Alemán-Gómez, Jérôme Yerly, Thomas Yu, Hamza Kebiri, Kelly Payette, Jean-Baptiste Ledoux, Reto Meuli, Patric Hagmann, Andras Jakab, Vincent Dunet, Mériam Koob, Tobias Kober, Matthias Stuber, Meritxell Bach Cuadra.
Scientific Reports, 2022
Maffei, Chiara, Gabriel Girard, Kurt G. Schilling, Dogu Baran Aydogan, Nagesh Adluru, Andrey Zhylka, Ye Wu et al.
NeuroImage, 2022


2021
Luis C. Garcia-Peraza-Herrera, Lucas Fidon, Claudia D'Ettorre, Danail Stoyanov, Tom Vercauteren, Sebastien Ourselin.
IEEE Transactions on Medical Imaging, 2021
Lucas Fidon, Elizabeth Viola, Nada Mufti, Nada Mufti, Anna L. David, Anna L. David, Andrew Melbourne, Philippe Demaerel, Sebastien Ourselin, Tom Vercauteren, Jan Deprest, Jan Deprest, Michael Aertsen.
Open Research Europe, 2021
Nada Mufti, Michael Aertsen, Michael Ebner, Lucas Fidon, Premal Patel, Muhamad Bin Abdul Rahman, Yannick Brackenier, Gregor Ekart, Virginia Fernandez, Tom Vercauteren, Sebastien Ourselin, Dominic Thomson, Luc De Catte, Philippe Demaerel, Jan Deprest, Anna L. David, Andrew Melbourne.
Neuroradiology, 2021
Florian Kofler, Ivan Ezhov, Lucas Fidon, Carolin M. Pirkl, Johannes C. Paetzold, Egon Burian, Sarthak Pati, Malek El Husseini, Fernando Navarro, Suprosanna Shit, Jan Kirschke, Spyridon Bakas, Claus Zimmer, Benedikt Wiestler, Bjoern H. Menze.
Frontiers in Neuroscience, 2021
Ezequiel de la Rosa, Diana M. Sima, Bjoern H. Menze, Jan S. Kirschke, David Robben.
Medical Image Analysis, 2021
Rakić M, Vercruyssen S, Van Eyndhoven S, de la Rosa E, Jain S, Van Huffel S, Maes F, Smeets D, Sima DM.
NeuroImage: Clinical, 2021
Wittens, M., Sima, D. M., Houbrechts, R., Ribbens, A., Niemantsverdriet, E., Fransen, E., Bastin, C., Benoit, F., Bergmans, B., Bier, J. C., De Deyn, P. P., Deryck, O., Hanseeuw, B., Ivanoiu, A., Lemper, J. C., Mormont, E., Picard, G., de la Rosa, E., Salmon, E., Segers, K., ... Engelborghs, S..
Journal of Alzheimer's Disease, 2021
Maria Ines Meyer, Maria Ines Meyer, Ezequiel de la Rosa, Ezequiel de la Rosa, Nuno Pedrosa de Barros, Roberto Paolella, Roberto Paolella, Koen Van Leemput, Koen Van Leemput, Diana M. Sima.
Frontiers in Neuroscience, 2021
Stefano Cerri, Oula Puonti, Dominik S.Meier, Jens Wuerfel, Mark Mühlau, Hartwig R.Siebner, Koen Van Leemput.
NeuroImage, 2021
Amnah Mahroo, Mareike Alicja Buck, Jörn Huber, Nora-Josefin Breutigam, Henk J. M. M. Mutsaerts, Martin Craig, Michael Chappell, Matthias Günther.
Frontiers in Neuroscience, 2021
Lisa Bartha-Doering, Ernst Schwartz, Kathrin Kollndorfer, Florian Ph. S. Fischmeister, Astrid Novak, Georg Langs, Harald Werneck, Daniela Prayer, Rainer Seidl, Gregor Kasprian.
Brain structure & function, 2021
Matthias Perkonigg, Johannes Hofmanninger, Christian J. Herold, James A. Brink, Oleg S. Pianykh, Helmut Prosch, Georg Langs.
Nature Communications, 2021
Marie Khawam, Priscille de Dumast, Priscille de Dumast, Pierre Deman, Pierre Deman, Hamza Kebiri, Hamza Kebiri, Thomas Yu, Thomas Yu, Sébastien Tourbier, Hélène Lajous, Hélène Lajous, Patric Hagmann, Philippe Maeder, Jean-Philippe Thiran, Jean-Philippe Thiran, Jean-Philippe Thiran, Reto Meuli, Vincent Dunet, Meritxell Bach Cuadra, Meritxell Bach Cuadra, Mériam Koob.
Frontiers in Pediatrics, 2021
Erick J. Canales-Rodríguez, Marco Pizzolato, Marco Pizzolato, Thomas Yu, Thomas Yu, Gian Franco Piredda, Gian Franco Piredda, Gian Franco Piredda, Tom Hilbert, Tom Hilbert, Tom Hilbert, Joaquim Radua, Joaquim Radua, Tobias Kober, Tobias Kober, Tobias Kober, Jean-Philippe Thiran, Jean-Philippe Thiran.
NeuroImage, 2021
Thomas Yu, Erick J. Canales-Rodríguez, Erick J. Canales-Rodríguez, Marco Pizzolato, Gian Franco Piredda, Tom Hilbert, Elda Fischi-Gomez, Matthias Weigel, Muhamed Barakovic, Meritxell Bach Cuadra, Cristina Granziera, Tobias Kober, Jean-Philippe Thiran.
Medical Image Analysis, 2021
Erick Jorge Canales-Rodríguez, Marco Pizzolato, Gian Franco Piredda, Tom Hilbert, Nicolas Kunz, Caroline Pot, Thomas Yu, Raymond Salvador, Edith Pomarol-Clotet, Tobias Kober, Jean-Philippe Thiran, Alessandro Daducci.
Medical Image Analysis, 2021
La Rosa, Francesco, Thomas Yu, Germán Barquero, Jean-Philippe Thiran, Cristina Granziera, and Meritxell Bach Cuadra.
Computers in Biology and Medicine, 2021


2020
Francesco La Rosa, Francesco La Rosa, Ahmed Abdulkadir, Mário João Fartaria, Reza Rahmanzadeh, Po-Jui Lu, Riccardo Galbusera, Muhamed Barakovic, Jean-Philippe Thiran, Cristina Granziera, Merixtell Bach Cuadra.
NeuroImage: Clinical, 2020
Germán Barquero, Francesco La Rosa, Hamza Kebiri, Po-Jui Lu, Reza Rahmanzadeh, Matthias Weigel, Mário João Fartaria, Tobias Kober, Marie Théaudin, Renaud Du Pasquier, Pascal Sati, Daniel S. Reich, Martina Absinta, Cristina Granziera, Pietro Maggi, Meritxell Bach Cuadra.
Neuroimage Clinical, 2020
Luca Canalini, Jan Klein, Dorothea Miller, Ron Kikinis.
International Journal of Computer Assisted Radiology and Surgery, 2020
Hanne Struyfs, Diana M. Sima, Melissa Wittens, Annemie Ribbens, Nuno Pedrosa de Barros, Thanh Vân Phan, Maria Ines Meyer, Lene Claes, Ellis Niemantsverdriet, Sebastiaan Engelborghs, Wim Van Hecke, Dirk Smeets.
NeuroImage: Clinical, 2020
Karl-Heinz Nenning, Julia Furtner, Barbara Kiesel, Ernst Schwartz, Thomas Roetzer, Nikolaus Fortelny, Christoph Bock, Christoph Bock, Anna Grisold, Martha Marko, Fritz Leutmezer, Hesheng Liu, Polina Golland, Sophia Stoecklein, Johannes A. Hainfellner, Gregor Kasprian, Daniela Prayer, Christine Marosi, Georg Widhalm, Adelheid Woehrer, Georg Langs, Georg Langs.
Scientific Reports, 2020
Karl-Heinz Nenning, Ting Xu, Ernst Schwartz, Jesús Arroyo, Adelheid Woehrer, Alexandre Rosa Franco, Joshua T. Vogelstein, Daniel S. Margulies, Hesheng Liu, Jonathan Smallwood, Michael P. Milham, Georg Langs.
NeuroImage, 2020


2019
Luca Canalini, Jan Klein, Dorothea Miller, Ron Kikinis.
International Journal of Computer Assisted Radiology and Surgery, 2019
Mikael Agn, Per Munck af Rosenschöld, Oula Puonti, Michael J. Lundemann, Laura Mancini, Anastasia Papadaki, Steffi Thust, John Ashburner, Ian Law, Koen Van Leemput.
Medical Image Analysis, 2019
Jonathan Scharff Nielsen, Jens Edmund, Koen Van Leemput.
Physics in Medicine & Biology, 2019
Jonathan Scharff Nielsen, Jonathan Scharff Nielsen, Koen Van Leemput, Koen Van Leemput, Jens Edmund.
Medical Physics, 2019
Amod Jog, Andrew Hoopes, Douglas N. Greve, Koen Van Leemput, Bruce Fischl.
NeuroImage, 2019

Conference and other publications

2021

Maria Ines Meyer, Ezequiel de la Rosa, Nuno Barros, Roberto Paolella, Koen Van Leemput, Diana M. Sima
An augmentation strategy to mimic multi-scanner variability in MRI.
International Symposium on Biomedical Imaging (ISBI 2021). April 2021

 

2020

Viana JS, de la Rosa E, Vyvere TV, Robben D, Sima DM.

Unsupervised 3D Brain Anomaly Detection.

MICCAI Brain Lesion Workshop (BrainLes 2020), Lima, Peru, October 2020.

de la Rosa, E., Robben, D., Sima, D.M., Kirschke, J.S. and Menze, B., 2020, October.
Differentiable Deconvolution for Improved Stroke Perfusion Analysis.
In International Conference on Medical Image Computing and Computer-Assisted Intervention (pp. 593-602). Springer, Cham.

Amnah Mahroo, Josepha F. Hilmer, Nora-Josefin Breutigam, Michael Chappell, Matthias Günther
Exchange time as a proxy measure of blood brain barrier integrity – A two-stage estimation
ESMRMB 2020.

Amnah Mahroo, Nora-Josefin Breutigam, Matthias Günther
Assessing Repeatability of Blood Brain Barrier Permeability Measure Using Contrast-free MRI
ISMRM 2020.

Nora-Josefin Breutigam, Daniel Christopher Hoinkiss, Mareike Alicja Buck, Amnah Mahroo, Federico von Samson-Himmelstjerna, Matthias Günther
Optimal subject-specific pCASL settings by automated inner-scan timing adaption
ISMRM 2020.

Francesco La Rosa, Erin S Beck, Ahmed Abdulkadir, Jean-Philippe Thiran, Daniel S Reich, Pascal Sati, Meritxell Bach Cuadra
Automated Detection of Cortical Lesions in Multiple Sclerosis Patients with 7T MRI
International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2020.

Andrey Zhylka, Alexander Leemans, Josien Pluim, Alberto De Luca
Anatomically informed multi-level fiber tractography for improved sensitivity of white matter bundle reconstruction in diffusion MRI
ISMRM 2020.

Andrey Zhylka, Nico Sollmann, Alberto De Luca, Daniel Krahulec, Marcel Breeuwer, Alexander Leemans, Josien Pluim
Multi-level fiber tracking: evaluation on clinical data

ISMRM 2020.

2019

Billast M., Meyer M.I., Sima D.M., Robben D.
Improved inter-scanner MS lesion segmentation by adversarial training on longitudinal data
MICCAI Brain Lesion Workshop (BrainLes 2019), Shenzhen, China, October 2019.

S. Shit, A. Ravi Venkatakrishnan, I. Ezhov, J. Lipkova, M. Piraud, B. Menze
Implicit Neural Solver for Time-dependent Linear PDEs with Convergence Guarantee
Machine Learning with Guarantees NeurIPS 2019 (Workshop), Vancouver, Canada, December 2019.

J. Paetzold*, S. Shit*, I. Ezhov, G. Tetteh, A. Ertürk, B. Menze
clDice-a Novel Connectivity-Preserving Loss Function for Vessel Segmentation
Medical Imaging Meets NeurIPS 2019 (Workshop), Vancouver, Canada, December 2019.

* Joint first author

Meyer M.I., de la Rosa E., Van Leemput K., Sima D.M.
Relevance Vector Machines for Harmonization of MRI Brain Volumes Using Image Descriptors
Proceedings of the 2nd Workshop on Machine Learning in Clinical Neuroimaging (MLCN 2019), Shenzhen, China, October 2019.

A. Zhylka, A. Leemans, J. Pluim, A. De Luca
On fiber orientation distribution peak selection for diffusion MRI fiber tractography
Magnetic Resonance Materials in Physics (2019) 32(Supplement 1): 1

F. Navarro*, S. Shit*, I. Ezhov, J. Paetzold, A. Gafita, J. Peeken, S. Combs, B. Menze
Shape-Aware Complementary-Task Learning for Multi-Organ Segmentation
Proceedings of the 10th International Workshop on Machine Learning in Medical Imaging (MLMI 2019), Shenzhen, China, October 2019.

* Joint first author

I. Ezhov, J. Lipkova, S. Shit, F. Kofler, N. Collomb, B. Lemasson, E. Barbier, B. Menze
Neural parameters estimation for brain tumor growth modeling
Proceedings of the 22th International Conference on Medical Image Computing and Computer Assisted Interventions (MICCAI), Shenzhen, China, October 2019.
L. Fidon, M. Ebner, L. C. Garcia-Peraza-Herrera, M. Modat, S. Ourselin, T. Vercauteren
Incompressible image registration using divergence-conforming B-splines
MICCAI 2019.

Canalini, L., Klein, J., Miller, D., Kikinis, R.
Registration of ultrasound volumes based on Euclidean distance transform, CuRIOUS Challenge, MICCAI 2019.

L. Ning, E. Bonet-Carne, F. Grussu, F. Sepehrband, E. Kaden, J. Veraart, S. Blumberg, C. S. Khoo, M. Palombo, J. Coll-Font, B. Scherrer, S. Warfield, S. Karayumak, Y. Rathi, S. Koppers, L. W., J. Ebert, D. Merhof, D. Moyer, M. Pietsch, D. Christiaens, R. Teixeira, J.-D. Tournier, A. Zhylka, J. Pluim, G. Parker, U. Rudrapatna, J. Evans, C. Charron, D. Jones, C.Tax
Cross-scanner and cross-protocol harmonisation of multi-shell diffusion MRI data: open challenge and evaluation results
ISMRM 2019 

L. Ning, E. Bonet-Carne, F. Grussu, F. Sepehrband,E. Kaden, J. Veraart, S. B. Blumberg, C. S. Khoo, M. Palombo, J. Coll-Font, B. Scherrer, S. K. Warfield, Su C. Karayumak, Y. Rathi, S. Koppers, L. Weninger, J. Ebert, D. Merhof, D. Moyer, M. Pietsch, D. Christiaens, R. Teixeira, J.-D. Tournier, A. Zhylka, J. Pluim, G. Parker, U. Rudrapatna, J. Evans, C. Charron, D. K. Jones and C. W. M. Tax
Muti-shell Diffusion MRI Harmonisationand Enhancement Challenge(MUSHAC): Progress and Results
Computational Diffusion MRI: International MICCAI Workshop, Granada, Spain, September 2018. Springer, p. 217-224

de la Rosa, E., Sima, D. M., Vyvere, T. V., Kirschke, J. S., & Menze, B. (2018).
A Radiomics Approach to Traumatic Brain Injury Prediction in CT Scans.
International Symposium on Biomedical Imaging (ISBI), Venice, Italy (2019).

T. Yu; M. Pizzolato; E. J. Canales-Rodrı́guez; J.-P. Thiran
Robust T2 Relaxometry with Hamiltonian MCMC for Myelin Water Fraction Estimation.
IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019), Venice, Italy, April 8-11, 2019.

T. Yu; M. Pizzolato; G. Girard; J. R. Patino Lopez; E. Jorge Canales-Rodriguez et al. 
Robust Biophysical Parameter Estimation with a Neural Network Enhanced Hamiltonian Markov Chain Monte Carlo Sampler.
Information Processing in Medical Imaging (IPMI 2019), Hong Kong, June 2-7 2019. 


2018
 
La Rosa, Francesco, Mário João Fartaria, Tobias Kober, Jonas Richiardi, Cristina Granziera, Jean-Philippe Thiran, Meritxell Bach Cuadra
Shallow vs deep learning architectures for white matter lesion segmentation in the early stages of multiple sclerosis.
International MICCAI Brainlesion Workshop. Springer, Cham, 2018.

Talks

 

2020

Amnah Mahroo, Josepha F. Hilmer, Nora-Josefin Breutigam, Michael Chappell, Matthias Günther
Exchange time as a proxy measure of blood brain barrier integrity – A two-stage estimation
ESMRMB Congress (2020)

Amnah Mahroo, Nora-Josefin Breutigam, Matthias Günther
Assessing Repeatability of Blood Brain Barrier Permeability Measure Using Contrast-free MRI
ISMRM Congress (2020)

2019

Zhylka A., Leemans A., Pluim J., De Luca A.
On fiber orientation distribution peak selection for diffusion MRI fiber tractography
ESMRMB Congress, Rotterdam, Netherlands (2019)

Canalini, L., Klein, J., Miller, D., Kikinis, R.
Segmentation-based registration of ultrasound volumes
Computer Assisted Radiology and Surgery (CARS), Rennes, France (2019)

MeVisLab demonstration networks

A number of ESRs have made available a small demo in MeVisLab to illustrate their methods. You can download these demos here.

MeVisLab is available for Windows, Linux, and macOS. You can download it from the official webpage (you don't need a license for running these networks). Each network is identified by the file extension .mlab. You can open the network from MeVisLab by clicking on File->Open and select the .mlab file you want to open. For each network, there is an accompanying document that gives a general overview of the functionality of the network. For some networks, example data is also provided.

If you have any questions regarding a specific MeVisLab network, please contact the corresponding ESR.