Bioengineering (Aug 2024)
Contrast-Enhancing Lesion Segmentation in Multiple Sclerosis: A Deep Learning Approach Validated in a Multicentric Cohort
- Martina Greselin,
- Po-Jui Lu,
- Lester Melie-Garcia,
- Mario Ocampo-Pineda,
- Riccardo Galbusera,
- Alessandro Cagol,
- Matthias Weigel,
- Nina de Oliveira Siebenborn,
- Esther Ruberte,
- Pascal Benkert,
- Stefanie Müller,
- Sebastian Finkener,
- Jochen Vehoff,
- Giulio Disanto,
- Oliver Findling,
- Andrew Chan,
- Anke Salmen,
- Caroline Pot,
- Claire Bridel,
- Chiara Zecca,
- Tobias Derfuss,
- Johanna M. Lieb,
- Michael Diepers,
- Franca Wagner,
- Maria I. Vargas,
- Renaud Du Pasquier,
- Patrice H. Lalive,
- Emanuele Pravatà,
- Johannes Weber,
- Claudio Gobbi,
- David Leppert,
- Olaf Chan-Hi Kim,
- Philippe C. Cattin,
- Robert Hoepner,
- Patrick Roth,
- Ludwig Kappos,
- Jens Kuhle,
- Cristina Granziera
Affiliations
- Martina Greselin
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Po-Jui Lu
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Lester Melie-Garcia
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Mario Ocampo-Pineda
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Riccardo Galbusera
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Alessandro Cagol
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Matthias Weigel
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Nina de Oliveira Siebenborn
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Esther Ruberte
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Pascal Benkert
- Clinical Trial Unit, Department of Clinical Research, University Hospital Basel, University of Basel, 4031 Basel, Switzerland
- Stefanie Müller
- Department of Neurology, Cantonal Hospital St. Gallen, 9000 St. Gallen, Switzerland
- Sebastian Finkener
- Department of Neurology, Cantonal Hospital Aarau, 5001 Aarau, Switzerland
- Jochen Vehoff
- Department of Neurology, Cantonal Hospital St. Gallen, 9000 St. Gallen, Switzerland
- Giulio Disanto
- Neurology Department, Neurocenter of Southern Switzerland, 6900 Lugano, Switzerland
- Oliver Findling
- Department of Neurology, Cantonal Hospital Aarau, 5001 Aarau, Switzerland
- Andrew Chan
- Department of Neurology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland
- Anke Salmen
- Department of Neurology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland
- Caroline Pot
- Service of Neurology, Department of Clinical Neurosciences, Lausanne University Hospital (CHUV), University of Lausanne, 1005 Lausanne, Switzerland
- Claire Bridel
- Division of Neurology, Department of Clinical Neurosciences, Faculty of Medicine, Geneva University Hospitals, 1205 Geneva, Switzerland
- Chiara Zecca
- Neurology Department, Neurocenter of Southern Switzerland, 6900 Lugano, Switzerland
- Tobias Derfuss
- Research Center for Clinical Neuroimmunology and Neuroscience Basel (RC2NB), University Hospital Basel, University of Basel, 4031 Basel, Switzerland
- Johanna M. Lieb
- Division of Diagnostic and Interventional Neuroradiology, Clinic for Radiology and Nuclear Medicine, University Hospital Basel, University of Basel, 4031 Basel, Switzerland
- Michael Diepers
- Department of Radiology, Cantonal Hospital Aarau, 5001 Aarau, Switzerland
- Franca Wagner
- Department of Diagnostic and Interventional Neuroradiology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland
- Maria I. Vargas
- Department of Radiology, Faculty of Medicine, Geneva University Hospital, 1205 Geneva, Switzerland
- Renaud Du Pasquier
- Service of Neurology, Department of Clinical Neurosciences, Lausanne University Hospital (CHUV), University of Lausanne, 1005 Lausanne, Switzerland
- Patrice H. Lalive
- Division of Neurology, Department of Clinical Neurosciences, Faculty of Medicine, Geneva University Hospitals, 1205 Geneva, Switzerland
- Emanuele Pravatà
- Faculty of biomedical Sciences, Università della Svizzera Italiana, 6962 Lugano, Switzerland
- Johannes Weber
- Department of Radiology, Cantonal Hospital St. Gallen, 9000 St. Gallen, Switzerland
- Claudio Gobbi
- Neurology Department, Neurocenter of Southern Switzerland, 6900 Lugano, Switzerland
- David Leppert
- Research Center for Clinical Neuroimmunology and Neuroscience Basel (RC2NB), University Hospital Basel, University of Basel, 4031 Basel, Switzerland
- Olaf Chan-Hi Kim
- Department of Radiology, Cantonal Hospital St. Gallen, 9000 St. Gallen, Switzerland
- Philippe C. Cattin
- Center for medical Image Analysis & Navigation, Department of Biomedical Engineering, University of Basel, 4123 Allschwil, Switzerland
- Robert Hoepner
- Department of Neurology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland
- Patrick Roth
- Department of Neurology, University Hospital of Zurich, University of Zurich, 8091 Zurich, Switzerland
- Ludwig Kappos
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- Jens Kuhle
- Department of Neurology, University Hospital Basel, 4031 Basel, Switzerland
- Cristina Granziera
- Translational Imaging in Neurology (ThINk) Basel, Department of Biomedical Engineering, Faculty of Medicine, University Hospital Basel, University of Basel, 4123 Basel, Switzerland
- DOI
- https://doi.org/10.3390/bioengineering11080858
- Journal volume & issue
-
Vol. 11,
no. 8
p. 858
Abstract
The detection of contrast-enhancing lesions (CELs) is fundamental for the diagnosis and monitoring of patients with multiple sclerosis (MS). This task is time-consuming and suffers from high intra- and inter-rater variability in clinical practice. However, only a few studies proposed automatic approaches for CEL detection. This study aimed to develop a deep learning model that automatically detects and segments CELs in clinical Magnetic Resonance Imaging (MRI) scans. A 3D UNet-based network was trained with clinical MRI from the Swiss Multiple Sclerosis Cohort. The dataset comprised 372 scans from 280 MS patients: 162 showed at least one CEL, while 118 showed no CELs. The input dataset consisted of T1-weighted before and after gadolinium injection, and FLuid Attenuated Inversion Recovery images. The sampling strategy was based on a white matter lesion mask to confirm the existence of real contrast-enhancing lesions. To overcome the dataset imbalance, a weighted loss function was implemented. The Dice Score Coefficient and True Positive and False Positive Rates were 0.76, 0.93, and 0.02, respectively. Based on these results, the model developed in this study might well be considered for clinical decision support.
Keywords
