Meritxell Bach Cuadra
EPFL STI IEL LTS5
ELD 233 (Bâtiment ELD)
Station 11
1015 Lausanne
+41 21 693 48 07
+41 21 693 35 58
Office:
ELD 233
EPFL
>
STI
>
IEM
>
LTS5
Web site: Web site: https://lts5www.epfl.ch/
EPFL CIBM-SP
CH F0 622 (Bâtiment CH)
Station 6
1015 Lausanne
+41 21 693 48 07
+41 21 693 35 58
Office:
ELD 233
EPFL
>
VPA-AVP-CP
>
CIBM
>
CIBM-SP
Web site: Web site: https://www.cibm.ch/
+41 21 693 35 58
EPFL
>
STI
>
STI-SEL
>
SEL-ENS
Biography
Meritxell Bach Cuadra received her degree in Telecommunication Engineering (ETSETB) from the Universitat Politècnica de Catalunya (UPC), Spain, in September 1999. In December 1999, she joined the Computer Vision and Image Analysis Group at the Signal Processing Laboratory (LTS5) as a Ph.D. student under the supervision of Prof. Jean-Philippe Thiran. She obtained her PhD degree in November 2003 for her work "Atlas-based Segmentation and Classification of Magnetic Resonance Brain Images." In June 2005 she joined the Signal Processing Core (SPC) of the Biomedical Imaging Center (CIBM) as responsible of the SPC-CHUV Unit at the Radiology Department of the Lausanne University Hospital (CHUV). As head of the SPC-CHUV unit her goal is to coordinate the medical image analysis research at LTS5 with the needs of expertise in signal/image processing of physicians and researchers at CHUV. In March 2011 Meritxell was promoted to Senior Lecturer (Maître dEnseignement et de Recherche) at the School of Biology and Medicine of the University of Lausanne where she will teach and develop independent researches at the interface between medical Imaging and image analysis. She is currently affiliated to both the Radiology Department of the Lausanne University Hospital and to the Signal Processing Laboratory LTS5 of the EPFL. Her main research interests are related to quantitative analysis of medical imaging and the integration of prior knowledge in this analysis. Meritxells research is focus to: - Segmentation (Active Contours, Graph theory), - Statistical classification (Bayesian framework, Hidden Markov Random Fields) - Image registration - applied to different medical image modalities like Magnetic Resonance (MR) and Diffusion MR imaging, Ultrasound imaging and Computed Tomography.Publications
Infoscience publications
Infoscience
SELF-SUPERVISED ISOTROPIC SUPERRESOLUTION FETAL BRAIN MRI
2023-01-01. 20th IEEE International Symposium on Biomedical Imaging (ISBI), Cartagena, COLOMBIA, APR 18-21, 2023. DOI : 10.1109/ISBI53787.2023.10230522.A multi-scale probabilistic atlas of the human connectome
Scientific Data. 2022-08-23. DOI : 10.1038/s41597-022-01624-8.Through-Plane Super-Resolution With Autoencoders in Diffusion Magnetic Resonance Imaging of the Developing Human Brain
Frontiers In Neurology. 2022-05-02. DOI : 10.3389/fneur.2022.827816.Editorial: Computational Neuroimage Analysis Tools for Brain (Diseases) Biomarkers
Frontiers In Neuroscience. 2022-02-18. DOI : 10.3389/fnins.2022.841807.Connectome Mapper 3: A Flexible and Open-Source Pipeline Software for Multiscale Multimodal Human Connectome Mapping
Journal of Open Source Software. 2022. DOI : 10.21105/joss.04248.Slice Estimation in Diffusion MRI of Neonatal and Fetal Brains in Image and Spherical Harmonics Domains Using Autoencoders
2022-01-01. 13th International Workshop on Computational Diffusion MRI (CDMRI), Singapore, SINGAPORE, Sep 22, 2022. p. 3-13. DOI : 10.1007/978-3-031-21206-2_1.BMAT: An open-source BIDS managing and analysis tool
Neuroimage-Clinical. 2022-01-01. DOI : 10.1016/j.nicl.2022.103252.Combining Model Driven and Data Driven Approaches for Inverse Problems in Parameter Estimation and Image Reconstruction: From Modelling to Validation
Lausanne, EPFL, 2022. DOI : 10.5075/epfl-thesis-9693.Deep learning-based analysis of multiple sclerosis lesions with high and ultra-high field MRI
Lausanne, EPFL, 2022. DOI : 10.5075/epfl-thesis-9571.Automated detection of cortical lesions with single and multi-contrast 7T MRI
2021-10-01. p. 458-459.Cortical lesion detection using FLAWS in multiple sclerosis
2021-10-01. p. 433-434.An assessment of intra-scanner reproducibility of myelin-sensitive MRI measures
2021-10-01. p. 430-431.CLaiMS-Net: cortical lesions assessment in multiple sclerosis patients via a convolutional neural network and a single 3T MRI acquisition
2021-10-01. p. 457-458.Chronic White Matter Inflammation and Serum Neurofilament Levels in Multiple Sclerosis
Neurology. 2021-08-10. DOI : 10.1212/WNL.0000000000012326.Fetal Brain Biometric Measurements on 3D Super-Resolution Reconstructed T2-Weighted MRI: An Intra- and Inter-observer Agreement Study
Frontiers In Pediatrics. 2021-08-10. DOI : 10.3389/fped.2021.639746.An automatic multi-tissue human fetal brain segmentation benchmark using the Fetal Tissue Annotation Dataset
Scientific Data. 2021-07-06. DOI : 10.1038/s41597-021-00946-3.Myelin and axon pathology in multiple sclerosis assessed by myelin water and multi-shell diffusion imaging
Brain. 2021-06-01. DOI : 10.1093/brain/awab088.Automated assessment of paramagnetic rim lesions in multiple sclerosis patients with 3T and 7T MP2RAGE
2021-05-15. The 2021 ISMRM & SMRT Annual Meeting & Eshibition, [Online], 15-20 may, 2021.GAMER-MRI in Multiple Sclerosis Identifies the Diffusion-Based Microstructural Measures That Are Most Sensitive to Focal Damage: A Deep-Learning-Based Analysis and Clinico-Biological Validation
Frontiers In Neuroscience. 2021-04-06. DOI : 10.3389/fnins.2021.647535.MPRAGE to MP2RAGE UNI translation via generative adversarial network improves the automatic tissue and lesion segmentation in multiple sclerosis patients
Computers in Biology and Medicine. 2021-02-26. DOI : 10.1016/j.compbiomed.2021.104297.Simulated Half-Fourier Acquisitions Single-shot Turbo Spin Echo (HASTE) of the Fetal Brain: Application to Super-Resolution Reconstruction
2021-01-01. 3rd Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging (UNSURE) / 6th International Workshop on Preterm, Perinatal and Paediatric Image Analysis (PIPPI), ELECTR NETWORK, Sep 27-Oct 01, 2021. p. 157-167. DOI : 10.1007/978-3-030-87735-4_15.Quantitative Evaluation of Enhanced Multi-plane Clinical Fetal Diffusion MRI with a Crossing-Fiber Phantom
2021-01-01. 12th International Workshop on Computational Diffusion MRI (CDMRI), ELECTR NETWORK, Oct 01, 2021. p. 12-22. DOI : 10.1007/978-3-030-87615-9_2.GAMER MRI: Gated-attention mechanism ranking of multi-contrast MRI in brain pathology
Neuroimage-Clinical. 2021-01-01. DOI : 10.1016/j.nicl.2020.102522.Model-informed machine learning for multi-component T2 relaxometry
Medical Image Analysis. 2020-12-17. DOI : 10.1016/j.media.2020.101940.A step forward toward the fully automated assessment of the central vein sign
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 7-7.Rimnet: a deep 3D multimodal MRI architecture for paramagnetic rim lesions assessment in multiple sclerosis
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 36-36.Quantitative susceptibility mapping classifies white matter lesions with different myelin and axonal content and quantifies diffuse pathology in MS
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 29-30.Studying intralesional axonal damage in ms white matter lesions with diffusion mri biophysical models
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 426-427.Advanced magnetic resonance imaging for myelin and axonal density in ms: correlation with clinical disability and serum neurofilament levels
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 372-372.Translating mprage to mp2rage improves the automatic tissue and lesion segmentation in multiple sclerosis patients
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 125-126.Evolution of Cortical and White Matter Lesion Load in Early-Stage Multiple Sclerosis: Correlation With Neuroaxonal Damage and Clinical Changes
Frontiers In Neurology. 2020-09-04. DOI : 10.3389/fneur.2020.00973.RimNet: A deep 3D multimodal MRI architecture for paramagnetic rim lesion assessment in multiple sclerosis
NeuroImage: Clinical. 2020-09-04. DOI : 10.1016/j.nicl.2020.102412.Partial-volume modeling reveals reduced gray matter in specific thalamic nuclei early in the time course of psychosis and chronic schizophrenia
Human Brain Mapping. 2020-07-10. DOI : 10.1002/hbm.25108.Multiple sclerosis cortical and WM lesion segmentation at 3T MRI: a deep learning method based on FLAIR and MP2RAGE
NeuroImage: Clinical. 2020-06-30. DOI : 10.1016/j.nicl.2020.102335.Normalization of aberrant pretherapeutic dynamic functional connectivity of extrastriate visual system in patients who underwent thalamotomy with stereotactic radiosurgery for essential tremor: a resting-state functional MRI study
Journal Of Neurosurgery. 2020-06-01. DOI : 10.3171/2019.2.JNS183454.Higher Order Spherical Harmonics Reconstruction of Fetal Diffusion MRI With Intensity Correction
Ieee Transactions On Medical Imaging. 2020-04-01. DOI : 10.1109/TMI.2019.2943565.CVSnet: A machine learning approach for automated central vein sign assessment in multiple sclerosis
Nmr In Biomedicine. 2020-03-03. DOI : 10.1002/nbm.4283.Improved susceptibility-weighted imaging for high contrast and resolution thalamic nuclei mapping at 7T
Magnetic Resonance In Medicine. 2020-02-12. DOI : 10.1002/mrm.28197.Quantification in Musculoskeletal Imaging Using Computational Analysis and Machine Learning: Segmentation and Radiomics
Seminars In Musculoskeletal Radiology. 2020-02-01. DOI : 10.1055/s-0039-3400268.Resting-state functional MRI for functional neurosurgery: seeing the light?
Journal Of Neurosurgery. 2019-10-01. DOI : 10.3171/2019.1.JNS1995.Deep learning-based detection of cortical lesions in multiple sclerosis patients with FLAIR, DIR, and MP2RAGE MRI sequences
2019-09-10. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Stockholm, Sweden, September 11-13, 2019. p. 131-356. DOI : 10.1177/1352458519868078.Deep learning analysis applied to multi-parametric advanced MRI shows higher myelin content and neurite density in juxtacortical lesions compared to periventricular lesions
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 241-242.A fully automated approach for differential diagnosis support in multiple sclerosis based on the central vein sign
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 133-133.Deep learning-based detection of cortical lesions in multiple sclerosis patients with FLAIR, DIR, and MP2RAGE MRI sequences
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 206-207.Axonal and myelin injury in white matter and cortex of relapsing-remitting and progressive multiple sclerosis patients: a combined myelin water and multi-shell diffusion MRI study
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 682-683.Axonal damage explains part of and extends beyond the diffuse pathology evidenced by T1 mapping in normal-appearing white matter of multiple sclerosis patients
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 683-684.Automated Detection and Segmentation of Multiple Sclerosis Lesions Using Ultra-High-Field MP2RAGE
Investigative Radiology. 2019-06-01. DOI : 10.1097/RLI.0000000000000551.Episodic memory decline in Parkinson' s disease: relation with white matter hyperintense lesions and influence of quantification method
Brain Imaging And Behavior. 2019-06-01. DOI : 10.1007/s11682-018-9909-x.A Novel Spatial-Angular Domain Regularisation Approach for Restoration of Diffusion MRI
2019-01-01. 21st International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) / 8th Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM) / International Workshop on Computational Diffusion MRI (CDMRI), Granada, SPAIN, Sep 16-21, 2018. p. 43-53. DOI : 10.1007/978-3-030-05831-9_4.Longitudinal analysis of white matter and cortical lesions in multiple sclerosis
Neuroimage-Clinical. 2019-01-01. DOI : 10.1016/j.nicl.2019.101938.Letter: Deep Brain Stimulation of the Pedunculopontine Nucleus Area in Parkinson Disease: Magnetic Resonance Imaging- Based Anatomoclinical Correlations and Optimal Target
Neurosurgery. 2019-01-01. DOI : 10.1093/neuros/nyy516.Comparison of MRI-based automated segmentation methods and functional neurosurgery targeting with direct visualization of the Ventro-intermediate thalamic nucleus at 7T
Scientific Reports. 2019. DOI : 10.1038/s41598-018-37825-8.Pretherapeutic resting-state fMRI profiles are associated with MR signature volumes after stereotactic radiosurgical thalamotomy for essential tremor
Journal Of Neurosurgery. 2018-12-01. DOI : 10.3171/2018.7.GKS18752.In-vivo probabilistic atlas of human thalamic nuclei based on diffusion-weighted magnetic resonance imaging
Scientific Data. 2018-11-27. DOI : 10.1038/sdata.2018.270.Personalized Anatomic Eye Model From T1-Weighted Volume Interpolated Gradient Echo Magnetic Resonance Imaging of Patients With Uveal Melanoma
International Journal Of Radiation Oncology Biology Physics. 2018-11-15. DOI : 10.1016/j.ijrobp.2018.05.004.Accuracy versus reproducibility: comprehensive assessment of four automated methods for multiple sclerosis lesion segmentation
2018-10-01. 34th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Berlin, GERMANY, Oct 10-12, 2018. p. 359-359.Automated assessment of new and enlarged white matter and cortical lesions in early multiple sclerosis
2018-10-01. 34th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Berlin, GERMANY, Oct 10-12, 2018. p. 570-570.Differential diagnosis of multiple sclerosis with machine learning-based central vein sign recognition
2018-10-01. 34th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Berlin, GERMANY, Oct 10-12, 2018. p. 530-531.Shallow vs deep learning architectures for white matter lesion segmentation in the early stages of multiple sclerosis
2018-09-10. BrainLes Workshop, MICCAI 2018, Granada, Spain, September 16, 2018. DOI : 10.1007/978-3-030-11723-8_14.Ocular Structures Segmentation from Multi-sequences MRI Using 3D Unet with Fully Connected CRFs
2018-01-01. 1st International Workshop on Computational Pathology (COMPAY) / 5th International Workshop on Ophthalmic Medical Image Analysis (OMIA), Granada, SPAIN, Sep 16-20, 2018. p. 167-175. DOI : 10.1007/978-3-030-00949-6_20.Visually-sensitive networks in essential tremor: evidence from structural and functional imaging
Brain. 2018. DOI : 10.1093/brain/awy094.Assessing the clinical outcome of Vim radiosurgery with voxel-based morphometry: visual areas are linked with tremor arrest!
Acta Neurochirurgica. 2017. DOI : 10.1007/s00701-017-3317-7.An Ultra-High Field Study of Cerebellar Pathology in Early Relapsing-Remitting Multiple Sclerosis Using MP2RAGE
Investigative Radiology. 2017. DOI : 10.1097/Rli.0000000000000338.Automatic Segmentation of the Eye in 3D Magnetic Resonance Imaging: A Novel Statistical Shape Model for Treatment Planning of Retinoblastoma
International Journal Of Radiation Oncology Biology Physics. 2015. DOI : 10.1016/j.ijrobp.2015.02.056.A Multi-Contrast MRI Study of Microstructural Brain Damage in Patients with Mild Cognitive Impairment
NeuroImage: Clinical. 2015. DOI : 10.1016/j.nicl.2015.06.003.Landmark Detection for Fusion of Fundus and MRI Toward a Patient-Specific Multimodal Eye Model
Ieee Transactions On Biomedical Engineering. 2015. DOI : 10.1109/Tbme.2014.2359676.An evaluation of volume-based morphometry for prediction of mild cognitive impairment and Alzheimer's disease
NeuroImage: Clinical. 2015. DOI : 10.1016/j.nicl.2014.11.001.Volume-based vs. voxel-based brain morphometry in Alzheimer's disease prediction
2014. 23rd International Society for Magnetic Resonance in Medicine (ISMRM) Conference, Milan, Italy, May 10-16, 2014.Semi-Supervised Segmentation of Ultrasound Images Based on Patch Representation and Continuous Min Cut
Plos One. 2014. DOI : 10.1371/journal.pone.0100972.MBIS: Multivariate Bayesian Image Segmentation tool
Computer Methods And Programs In Biomedicine. 2014. DOI : 10.1016/j.cmpb.2014.03.003.Evaluation and Comparison of Current Fetal Ultrasound Image Segmentation Methods for Biometric Measurements: A Grand Challenge
Ieee Transactions On Medical Imaging. 2014. DOI : 10.1109/Tmi.2013.2276943.Simulation-based evaluation of susceptibility distortion correction methods in diffusion MRI for connectivity analysis
2014. IEEE 11th International Symposium on Biomedical Imaging - From Nano to Macro (ISBI), Beijing, China, April 29 - May 2, 2014. p. 738-741. DOI : 10.1109/ISBI.2014.6867976.A NEW APPROACH FOR CEREBELLO-THALAMIC MOTOR NETWORK EVALUATION IN ASYMPTOMATIC PREMUTATION CARRIERS AT RISK FOR FXTAS
Human Brain Mapping, Seattle, USA, June 16-20, 2013.Weighted Shape-Based Averaging With Neighborhood Prior Model for Multiple Atlas Fusion-Based Medical Image Segmentation
IEEE Signal Processing Letters. 2013. DOI : 10.1109/LSP.2013.2279269.Multi Atlas Fusion Methods for Medical Image Segmentation
Lausanne, EPFL, 2013. DOI : 10.5075/epfl-thesis-5747.Towards a connectome mapping pipeline for neonates using high-resolution MP2RAGE and DTI
2013. 21st Annual Meeting International Society for Magnetic Resonance in Medicine, Salt Lake City, Utah, USA, April 20-26,2013.Multi-atlas fusion methods for segmentation of head and neck lymph nodes for radiotherapy planning
2013. 2nd ESTRO Forum, Geneva, April 19-23, 2013.Atlas-free brain tissue segmentation using a single T1-weighted MRI acquisition
2012. International Society for Magnetic Resonance in Medicine (ISMRM), Melbourne, Australia, May 5-11.STATISTICAL MODELING OF THE EYE FOR MULTIMODAL TREATMENT PLANNING FOR EXTERNAL BEAM RADIOTHERAPY OF INTRAOCULAR TUMORS
International Journal of Radiation Oncology, Biology, Physics.. 2012. DOI : 10.1016/j.ijrobp.2012.05.040.Brain tissue segmentation on diffusion weighted magnetic resonance data
2012. IEEE International Symposium on Biomedical Imaging (ISBI) 2012, Barcelona, Spain, 2-5 May 2012.Evaluation of Atlas Fusion Strategies for Segmentation of Head and Neck Lymph Nodes for Radiotherapy Planning
2012. IEEE International Symposium on Biomedical Imaging (ISBI), Barcelona, Spain, May 2-5, 2012. p. 1276-1279. DOI : 10.1109/ISBI.2012.6235795.How to Measure Cortical Folding from MR Images: a Step-by-Step Tutorial to Compute Local Gyrification Index
Journal of Visualized Experiments. 2012. DOI : 10.3791/3417.A pipeline approach with spatial information for segmenting multiple sclerosis lesions on brain magnetic resonance imaging
5th Joint triennial congress of the European and Americas committees for treatment and research in multiple sclerosis, Amsterdam, The Netherlands, October 19-22, 2011.Fusion of Multi-Atlas Segmentations with Spatial Distribution Modeling
2011. MICCAI Worskshop on Multi-Atlas Labeling and Statistical Fusion, Toronto, Canada, September, 18-22, 2011.On the Convergence of EM-Like Algorithms for Image Segmentation using Markov Random Fields
Medical Image Analysis -Elsevier-. 2011. DOI : 10.1016/j.media.2011.05.002.Towards a diffusion image processing validation and accuracy prediction framework
2011. IEEE International Conference on Image Processing, Brussel, Belgium, September 11-14, 2011. p. 2269-2272. DOI : 10.1109/ICIP.2011.6116091.Comparison of Energy Minimization Methods for 3-D Brain Tissue Classification
2011. IEEE International Conference on Image Processing, Brussels, Belgium, September 11-14, 2011. p. 57-60. DOI : 10.1109/ICIP.2011.6116615.Review on Atlas-based Segmentation of Magnetic Resonance Brain Images
Computer Methods and Programs in Biomedicine. 2011. DOI : 10.1016/j.cmpb.2011.07.015.Comparison of tissue classification models for automatic brain MR segmentation
19th Annual Meeting and Exhibition ISMRM, Montreal, Quebec, Canada, May 7-13, 2011.Quantitative morphometry analysis of the fetal brain using clinical MR imaging
19th Annual Meeting and Exhibition ISMRM, Montreal, Quebec, Canada, May 7-13.3D Ultrasound Tumor Segmentation and Fusion with CT for Stereotactic Radiation Therapy Planning of Retinoblastoma
10th Biennial Congress and Exhibition of the International Stereotactic Radio surgery Society, Paris, France, May 8-12, 2011.An Efficient Segmentation Method for Ultrasound Images based on a Semi-supervised Approach and Patch-based Features
2011. 8th IEEE International Symposium on Biomedical Imaging, Chicago, Illinois, USA, March 30th - April 2nd, 2011. p. 969-972. DOI : 10.1109/ISBI.2011.5872564.Model-based Segmentation and Fusion of 3D Computed Tomography and 3D Ultrasound of the Eye for Radiotherapy Planning
Computational Vision and Medical Image Processing; Springer, 2011. p. 247-263.Active Deformation Fields: Dense Deformation Field Estimation for Atlas-based Segmentation using the Active Contour Framework
Medical Image Analysis. 2011. DOI : 10.1016/j.media.2011.05.008.Exporting Contours to DICOM-RTSTRUCT
Kitware Newsletter.A post-processing pipeline to reconstruct the developing fetal brain using low-resolution MRI
16th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, June 6th-10th, 2010.Central and Cortical Gray Mater Segmentation of Magnetic Resonance Images of the Fetal Brain
ISMRM-ESMRMB Joint Annual Meeting, Stockholm, Sweden, 1st-7th May, 2010.Regional cortical volumes and congenital heart disease: a MRI study in 22q11.2 deletion syndrome
Journal of Neurodevelopmental Disorders. 2010. DOI : 10.1007/s11689-010-9061-4.Multi-Atlas based Segmentation of Head and Neck CT Images using Active Contour Framework
2010. MICCAI workshop on 3D Segmentation Challenge for Clinical Applications, Beijing, China, September 20-24, 2010.Deviant trajectories of cortical maturation in 22q11.2 deletion syndrome (22q11DS): A cross-sectional and longitudinal study
Schizophrenia Research. 2009. DOI : 10.1016/j.schres.2009.09.016.SELF-SUPERVISED ISOTROPIC SUPERRESOLUTION FETAL BRAIN MRI
2023-01-01. 20th IEEE International Symposium on Biomedical Imaging (ISBI), Cartagena, COLOMBIA, APR 18-21, 2023. DOI : 10.1109/ISBI53787.2023.10230522.A multi-scale probabilistic atlas of the human connectome
Scientific Data. 2022-08-23. DOI : 10.1038/s41597-022-01624-8.Through-Plane Super-Resolution With Autoencoders in Diffusion Magnetic Resonance Imaging of the Developing Human Brain
Frontiers In Neurology. 2022-05-02. DOI : 10.3389/fneur.2022.827816.Editorial: Computational Neuroimage Analysis Tools for Brain (Diseases) Biomarkers
Frontiers In Neuroscience. 2022-02-18. DOI : 10.3389/fnins.2022.841807.Connectome Mapper 3: A Flexible and Open-Source Pipeline Software for Multiscale Multimodal Human Connectome Mapping
Journal of Open Source Software. 2022. DOI : 10.21105/joss.04248.Slice Estimation in Diffusion MRI of Neonatal and Fetal Brains in Image and Spherical Harmonics Domains Using Autoencoders
2022-01-01. 13th International Workshop on Computational Diffusion MRI (CDMRI), Singapore, SINGAPORE, Sep 22, 2022. p. 3-13. DOI : 10.1007/978-3-031-21206-2_1.BMAT: An open-source BIDS managing and analysis tool
Neuroimage-Clinical. 2022-01-01. DOI : 10.1016/j.nicl.2022.103252.Combining Model Driven and Data Driven Approaches for Inverse Problems in Parameter Estimation and Image Reconstruction: From Modelling to Validation
Lausanne, EPFL, 2022. DOI : 10.5075/epfl-thesis-9693.Deep learning-based analysis of multiple sclerosis lesions with high and ultra-high field MRI
Lausanne, EPFL, 2022. DOI : 10.5075/epfl-thesis-9571.Automated detection of cortical lesions with single and multi-contrast 7T MRI
2021-10-01. p. 458-459.Cortical lesion detection using FLAWS in multiple sclerosis
2021-10-01. p. 433-434.An assessment of intra-scanner reproducibility of myelin-sensitive MRI measures
2021-10-01. p. 430-431.CLaiMS-Net: cortical lesions assessment in multiple sclerosis patients via a convolutional neural network and a single 3T MRI acquisition
2021-10-01. p. 457-458.Chronic White Matter Inflammation and Serum Neurofilament Levels in Multiple Sclerosis
Neurology. 2021-08-10. DOI : 10.1212/WNL.0000000000012326.Fetal Brain Biometric Measurements on 3D Super-Resolution Reconstructed T2-Weighted MRI: An Intra- and Inter-observer Agreement Study
Frontiers In Pediatrics. 2021-08-10. DOI : 10.3389/fped.2021.639746.An automatic multi-tissue human fetal brain segmentation benchmark using the Fetal Tissue Annotation Dataset
Scientific Data. 2021-07-06. DOI : 10.1038/s41597-021-00946-3.Myelin and axon pathology in multiple sclerosis assessed by myelin water and multi-shell diffusion imaging
Brain. 2021-06-01. DOI : 10.1093/brain/awab088.Automated assessment of paramagnetic rim lesions in multiple sclerosis patients with 3T and 7T MP2RAGE
2021-05-15. The 2021 ISMRM & SMRT Annual Meeting & Eshibition, [Online], 15-20 may, 2021.GAMER-MRI in Multiple Sclerosis Identifies the Diffusion-Based Microstructural Measures That Are Most Sensitive to Focal Damage: A Deep-Learning-Based Analysis and Clinico-Biological Validation
Frontiers In Neuroscience. 2021-04-06. DOI : 10.3389/fnins.2021.647535.MPRAGE to MP2RAGE UNI translation via generative adversarial network improves the automatic tissue and lesion segmentation in multiple sclerosis patients
Computers in Biology and Medicine. 2021-02-26. DOI : 10.1016/j.compbiomed.2021.104297.Simulated Half-Fourier Acquisitions Single-shot Turbo Spin Echo (HASTE) of the Fetal Brain: Application to Super-Resolution Reconstruction
2021-01-01. 3rd Workshop on Uncertainty for Safe Utilization of Machine Learning in Medical Imaging (UNSURE) / 6th International Workshop on Preterm, Perinatal and Paediatric Image Analysis (PIPPI), ELECTR NETWORK, Sep 27-Oct 01, 2021. p. 157-167. DOI : 10.1007/978-3-030-87735-4_15.Quantitative Evaluation of Enhanced Multi-plane Clinical Fetal Diffusion MRI with a Crossing-Fiber Phantom
2021-01-01. 12th International Workshop on Computational Diffusion MRI (CDMRI), ELECTR NETWORK, Oct 01, 2021. p. 12-22. DOI : 10.1007/978-3-030-87615-9_2.GAMER MRI: Gated-attention mechanism ranking of multi-contrast MRI in brain pathology
Neuroimage-Clinical. 2021-01-01. DOI : 10.1016/j.nicl.2020.102522.Model-informed machine learning for multi-component T2 relaxometry
Medical Image Analysis. 2020-12-17. DOI : 10.1016/j.media.2020.101940.A step forward toward the fully automated assessment of the central vein sign
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 7-7.Rimnet: a deep 3D multimodal MRI architecture for paramagnetic rim lesions assessment in multiple sclerosis
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 36-36.Quantitative susceptibility mapping classifies white matter lesions with different myelin and axonal content and quantifies diffuse pathology in MS
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 29-30.Studying intralesional axonal damage in ms white matter lesions with diffusion mri biophysical models
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 426-427.Advanced magnetic resonance imaging for myelin and axonal density in ms: correlation with clinical disability and serum neurofilament levels
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 372-372.Translating mprage to mp2rage improves the automatic tissue and lesion segmentation in multiple sclerosis patients
2020-12-01. 8th Joint ACTRIMS-ECTRIMS Meeting (MSVirtual), ELECTR NETWORK, Sep 11-13, 2020. p. 125-126.Evolution of Cortical and White Matter Lesion Load in Early-Stage Multiple Sclerosis: Correlation With Neuroaxonal Damage and Clinical Changes
Frontiers In Neurology. 2020-09-04. DOI : 10.3389/fneur.2020.00973.RimNet: A deep 3D multimodal MRI architecture for paramagnetic rim lesion assessment in multiple sclerosis
NeuroImage: Clinical. 2020-09-04. DOI : 10.1016/j.nicl.2020.102412.Partial-volume modeling reveals reduced gray matter in specific thalamic nuclei early in the time course of psychosis and chronic schizophrenia
Human Brain Mapping. 2020-07-10. DOI : 10.1002/hbm.25108.Multiple sclerosis cortical and WM lesion segmentation at 3T MRI: a deep learning method based on FLAIR and MP2RAGE
NeuroImage: Clinical. 2020-06-30. DOI : 10.1016/j.nicl.2020.102335.Normalization of aberrant pretherapeutic dynamic functional connectivity of extrastriate visual system in patients who underwent thalamotomy with stereotactic radiosurgery for essential tremor: a resting-state functional MRI study
Journal Of Neurosurgery. 2020-06-01. DOI : 10.3171/2019.2.JNS183454.Higher Order Spherical Harmonics Reconstruction of Fetal Diffusion MRI With Intensity Correction
Ieee Transactions On Medical Imaging. 2020-04-01. DOI : 10.1109/TMI.2019.2943565.CVSnet: A machine learning approach for automated central vein sign assessment in multiple sclerosis
Nmr In Biomedicine. 2020-03-03. DOI : 10.1002/nbm.4283.Improved susceptibility-weighted imaging for high contrast and resolution thalamic nuclei mapping at 7T
Magnetic Resonance In Medicine. 2020-02-12. DOI : 10.1002/mrm.28197.Quantification in Musculoskeletal Imaging Using Computational Analysis and Machine Learning: Segmentation and Radiomics
Seminars In Musculoskeletal Radiology. 2020-02-01. DOI : 10.1055/s-0039-3400268.Resting-state functional MRI for functional neurosurgery: seeing the light?
Journal Of Neurosurgery. 2019-10-01. DOI : 10.3171/2019.1.JNS1995.Deep learning-based detection of cortical lesions in multiple sclerosis patients with FLAIR, DIR, and MP2RAGE MRI sequences
2019-09-10. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Stockholm, Sweden, September 11-13, 2019. p. 131-356. DOI : 10.1177/1352458519868078.Deep learning analysis applied to multi-parametric advanced MRI shows higher myelin content and neurite density in juxtacortical lesions compared to periventricular lesions
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 241-242.A fully automated approach for differential diagnosis support in multiple sclerosis based on the central vein sign
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 133-133.Deep learning-based detection of cortical lesions in multiple sclerosis patients with FLAIR, DIR, and MP2RAGE MRI sequences
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 206-207.Axonal and myelin injury in white matter and cortex of relapsing-remitting and progressive multiple sclerosis patients: a combined myelin water and multi-shell diffusion MRI study
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 682-683.Axonal damage explains part of and extends beyond the diffuse pathology evidenced by T1 mapping in normal-appearing white matter of multiple sclerosis patients
2019-09-01. 35th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS) / 24th Annual Conference of Rehabilitation in MS, Stockholm, SWEDEN, Sep 11-13, 2019. p. 683-684.Automated Detection and Segmentation of Multiple Sclerosis Lesions Using Ultra-High-Field MP2RAGE
Investigative Radiology. 2019-06-01. DOI : 10.1097/RLI.0000000000000551.Episodic memory decline in Parkinson' s disease: relation with white matter hyperintense lesions and influence of quantification method
Brain Imaging And Behavior. 2019-06-01. DOI : 10.1007/s11682-018-9909-x.A Novel Spatial-Angular Domain Regularisation Approach for Restoration of Diffusion MRI
2019-01-01. 21st International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) / 8th Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM) / International Workshop on Computational Diffusion MRI (CDMRI), Granada, SPAIN, Sep 16-21, 2018. p. 43-53. DOI : 10.1007/978-3-030-05831-9_4.Longitudinal analysis of white matter and cortical lesions in multiple sclerosis
Neuroimage-Clinical. 2019-01-01. DOI : 10.1016/j.nicl.2019.101938.Letter: Deep Brain Stimulation of the Pedunculopontine Nucleus Area in Parkinson Disease: Magnetic Resonance Imaging- Based Anatomoclinical Correlations and Optimal Target
Neurosurgery. 2019-01-01. DOI : 10.1093/neuros/nyy516.Comparison of MRI-based automated segmentation methods and functional neurosurgery targeting with direct visualization of the Ventro-intermediate thalamic nucleus at 7T
Scientific Reports. 2019. DOI : 10.1038/s41598-018-37825-8.Pretherapeutic resting-state fMRI profiles are associated with MR signature volumes after stereotactic radiosurgical thalamotomy for essential tremor
Journal Of Neurosurgery. 2018-12-01. DOI : 10.3171/2018.7.GKS18752.In-vivo probabilistic atlas of human thalamic nuclei based on diffusion-weighted magnetic resonance imaging
Scientific Data. 2018-11-27. DOI : 10.1038/sdata.2018.270.Personalized Anatomic Eye Model From T1-Weighted Volume Interpolated Gradient Echo Magnetic Resonance Imaging of Patients With Uveal Melanoma
International Journal Of Radiation Oncology Biology Physics. 2018-11-15. DOI : 10.1016/j.ijrobp.2018.05.004.Accuracy versus reproducibility: comprehensive assessment of four automated methods for multiple sclerosis lesion segmentation
2018-10-01. 34th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Berlin, GERMANY, Oct 10-12, 2018. p. 359-359.Automated assessment of new and enlarged white matter and cortical lesions in early multiple sclerosis
2018-10-01. 34th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Berlin, GERMANY, Oct 10-12, 2018. p. 570-570.Differential diagnosis of multiple sclerosis with machine learning-based central vein sign recognition
2018-10-01. 34th Congress of the European-Committee-for-Treatment-and-Research-in-Multiple-Sclerosis (ECTRIMS), Berlin, GERMANY, Oct 10-12, 2018. p. 530-531.Shallow vs deep learning architectures for white matter lesion segmentation in the early stages of multiple sclerosis
2018-09-10. BrainLes Workshop, MICCAI 2018, Granada, Spain, September 16, 2018. DOI : 10.1007/978-3-030-11723-8_14.Ocular Structures Segmentation from Multi-sequences MRI Using 3D Unet with Fully Connected CRFs
2018-01-01. 1st International Workshop on Computational Pathology (COMPAY) / 5th International Workshop on Ophthalmic Medical Image Analysis (OMIA), Granada, SPAIN, Sep 16-20, 2018. p. 167-175. DOI : 10.1007/978-3-030-00949-6_20.Visually-sensitive networks in essential tremor: evidence from structural and functional imaging
Brain. 2018. DOI : 10.1093/brain/awy094.Assessing the clinical outcome of Vim radiosurgery with voxel-based morphometry: visual areas are linked with tremor arrest!
Acta Neurochirurgica. 2017. DOI : 10.1007/s00701-017-3317-7.An Ultra-High Field Study of Cerebellar Pathology in Early Relapsing-Remitting Multiple Sclerosis Using MP2RAGE
Investigative Radiology. 2017. DOI : 10.1097/Rli.0000000000000338.Automatic Segmentation of the Eye in 3D Magnetic Resonance Imaging: A Novel Statistical Shape Model for Treatment Planning of Retinoblastoma
International Journal Of Radiation Oncology Biology Physics. 2015. DOI : 10.1016/j.ijrobp.2015.02.056.A Multi-Contrast MRI Study of Microstructural Brain Damage in Patients with Mild Cognitive Impairment
NeuroImage: Clinical. 2015. DOI : 10.1016/j.nicl.2015.06.003.Landmark Detection for Fusion of Fundus and MRI Toward a Patient-Specific Multimodal Eye Model
Ieee Transactions On Biomedical Engineering. 2015. DOI : 10.1109/Tbme.2014.2359676.An evaluation of volume-based morphometry for prediction of mild cognitive impairment and Alzheimer's disease
NeuroImage: Clinical. 2015. DOI : 10.1016/j.nicl.2014.11.001.Volume-based vs. voxel-based brain morphometry in Alzheimer's disease prediction
2014. 23rd International Society for Magnetic Resonance in Medicine (ISMRM) Conference, Milan, Italy, May 10-16, 2014.Semi-Supervised Segmentation of Ultrasound Images Based on Patch Representation and Continuous Min Cut
Plos One. 2014. DOI : 10.1371/journal.pone.0100972.MBIS: Multivariate Bayesian Image Segmentation tool
Computer Methods And Programs In Biomedicine. 2014. DOI : 10.1016/j.cmpb.2014.03.003.Evaluation and Comparison of Current Fetal Ultrasound Image Segmentation Methods for Biometric Measurements: A Grand Challenge
Ieee Transactions On Medical Imaging. 2014. DOI : 10.1109/Tmi.2013.2276943.Simulation-based evaluation of susceptibility distortion correction methods in diffusion MRI for connectivity analysis
2014. IEEE 11th International Symposium on Biomedical Imaging - From Nano to Macro (ISBI), Beijing, China, April 29 - May 2, 2014. p. 738-741. DOI : 10.1109/ISBI.2014.6867976.A NEW APPROACH FOR CEREBELLO-THALAMIC MOTOR NETWORK EVALUATION IN ASYMPTOMATIC PREMUTATION CARRIERS AT RISK FOR FXTAS
Human Brain Mapping, Seattle, USA, June 16-20, 2013.Weighted Shape-Based Averaging With Neighborhood Prior Model for Multiple Atlas Fusion-Based Medical Image Segmentation
IEEE Signal Processing Letters. 2013. DOI : 10.1109/LSP.2013.2279269.Multi Atlas Fusion Methods for Medical Image Segmentation
Lausanne, EPFL, 2013. DOI : 10.5075/epfl-thesis-5747.Towards a connectome mapping pipeline for neonates using high-resolution MP2RAGE and DTI
2013. 21st Annual Meeting International Society for Magnetic Resonance in Medicine, Salt Lake City, Utah, USA, April 20-26,2013.Multi-atlas fusion methods for segmentation of head and neck lymph nodes for radiotherapy planning
2013. 2nd ESTRO Forum, Geneva, April 19-23, 2013.Atlas-free brain tissue segmentation using a single T1-weighted MRI acquisition
2012. International Society for Magnetic Resonance in Medicine (ISMRM), Melbourne, Australia, May 5-11.STATISTICAL MODELING OF THE EYE FOR MULTIMODAL TREATMENT PLANNING FOR EXTERNAL BEAM RADIOTHERAPY OF INTRAOCULAR TUMORS
International Journal of Radiation Oncology, Biology, Physics.. 2012. DOI : 10.1016/j.ijrobp.2012.05.040.Brain tissue segmentation on diffusion weighted magnetic resonance data
2012. IEEE International Symposium on Biomedical Imaging (ISBI) 2012, Barcelona, Spain, 2-5 May 2012.Evaluation of Atlas Fusion Strategies for Segmentation of Head and Neck Lymph Nodes for Radiotherapy Planning
2012. IEEE International Symposium on Biomedical Imaging (ISBI), Barcelona, Spain, May 2-5, 2012. p. 1276-1279. DOI : 10.1109/ISBI.2012.6235795.How to Measure Cortical Folding from MR Images: a Step-by-Step Tutorial to Compute Local Gyrification Index
Journal of Visualized Experiments. 2012. DOI : 10.3791/3417.A pipeline approach with spatial information for segmenting multiple sclerosis lesions on brain magnetic resonance imaging
5th Joint triennial congress of the European and Americas committees for treatment and research in multiple sclerosis, Amsterdam, The Netherlands, October 19-22, 2011.Fusion of Multi-Atlas Segmentations with Spatial Distribution Modeling
2011. MICCAI Worskshop on Multi-Atlas Labeling and Statistical Fusion, Toronto, Canada, September, 18-22, 2011.On the Convergence of EM-Like Algorithms for Image Segmentation using Markov Random Fields
Medical Image Analysis -Elsevier-. 2011. DOI : 10.1016/j.media.2011.05.002.Towards a diffusion image processing validation and accuracy prediction framework
2011. IEEE International Conference on Image Processing, Brussel, Belgium, September 11-14, 2011. p. 2269-2272. DOI : 10.1109/ICIP.2011.6116091.Comparison of Energy Minimization Methods for 3-D Brain Tissue Classification
2011. IEEE International Conference on Image Processing, Brussels, Belgium, September 11-14, 2011. p. 57-60. DOI : 10.1109/ICIP.2011.6116615.Review on Atlas-based Segmentation of Magnetic Resonance Brain Images
Computer Methods and Programs in Biomedicine. 2011. DOI : 10.1016/j.cmpb.2011.07.015.Comparison of tissue classification models for automatic brain MR segmentation
19th Annual Meeting and Exhibition ISMRM, Montreal, Quebec, Canada, May 7-13, 2011.Quantitative morphometry analysis of the fetal brain using clinical MR imaging
19th Annual Meeting and Exhibition ISMRM, Montreal, Quebec, Canada, May 7-13.3D Ultrasound Tumor Segmentation and Fusion with CT for Stereotactic Radiation Therapy Planning of Retinoblastoma
10th Biennial Congress and Exhibition of the International Stereotactic Radio surgery Society, Paris, France, May 8-12, 2011.An Efficient Segmentation Method for Ultrasound Images based on a Semi-supervised Approach and Patch-based Features
2011. 8th IEEE International Symposium on Biomedical Imaging, Chicago, Illinois, USA, March 30th - April 2nd, 2011. p. 969-972. DOI : 10.1109/ISBI.2011.5872564.Model-based Segmentation and Fusion of 3D Computed Tomography and 3D Ultrasound of the Eye for Radiotherapy Planning
Computational Vision and Medical Image Processing; Springer, 2011. p. 247-263.Active Deformation Fields: Dense Deformation Field Estimation for Atlas-based Segmentation using the Active Contour Framework
Medical Image Analysis. 2011. DOI : 10.1016/j.media.2011.05.008.Exporting Contours to DICOM-RTSTRUCT
Kitware Newsletter.A post-processing pipeline to reconstruct the developing fetal brain using low-resolution MRI
16th Annual Meeting of the Organization for Human Brain Mapping, Barcelona, Spain, June 6th-10th, 2010.Central and Cortical Gray Mater Segmentation of Magnetic Resonance Images of the Fetal Brain
ISMRM-ESMRMB Joint Annual Meeting, Stockholm, Sweden, 1st-7th May, 2010.Regional cortical volumes and congenital heart disease: a MRI study in 22q11.2 deletion syndrome
Journal of Neurodevelopmental Disorders. 2010. DOI : 10.1007/s11689-010-9061-4.Multi-Atlas based Segmentation of Head and Neck CT Images using Active Contour Framework
2010. MICCAI workshop on 3D Segmentation Challenge for Clinical Applications, Beijing, China, September 20-24, 2010.Deviant trajectories of cortical maturation in 22q11.2 deletion syndrome (22q11DS): A cross-sectional and longitudinal study
Schizophrenia Research. 2009. DOI : 10.1016/j.schres.2009.09.016.Teaching & PhD
Teaching
Electrical and Electronics Engineering