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Posts by Collection
portfolio
Portfolio item number 2
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publications
Multi-dimensional topological loss for cortical plate segmentation in fetal brain MRI
de Dumast, P., Kebiri, H., Dunet, V., Koob, M., Bach Cuadra, M. (2022). "Multi-dimensional topological loss for cortical plate segmentation in fetal brain MRI." arXiv.
Learning environments are associated withdevelopmental trajectories of thalamocorticalattention circuits in childhood (submitted)
Mino-Matot*, T., Kebiri*, H. Jorge, J., Ledoux, J.B., Fornari, E., Bach Cuadra, M., Denervaud, S. (2026). "Data-driven pediatric thalamic parcellation reveals pedagogy-selective maturation of attention circuits."
An automatic multi-tissue human fetal brain segmentation benchmark using the Fetal Tissue Annotation Dataset
Payette, K., de Dumast, P., Kebiri, H., et al. (2022). "An automatic multi-tissue human fetal brain segmentation benchmark using the Fetal Tissue Annotation Dataset." Nature Scientific Data.
Multi-view convolutional neural networks for automated ocular structure and tumor segmentation in retinoblastoma
Strijbis, V.I.J., de Bloeme, C.M., Jansen, R.W., Kebiri, H., et al. (2021). "Multi-view convolutional neural networks for automated ocular structure and tumor segmentation in retinoblastoma." Nature Scientific Reports.
RimNet: A deep 3D multimodal MRI architecture for paramagnetic rim lesions assessment in multiple sclerosis
Barquero Garcia, G., La Rosa, F., Kebiri, H., et al. (2020). "RimNet: A deep 3D multimodal MRI architecture for paramagnetic rim lesions assessment in multiple sclerosis." NeuroImage: Clinical.
Domain shifts in infant brain diffusion MRI: Quantification and mitigation for fODF estimation
Kebiri*, H., Lin*, R., Gholipour, A., Chen, Y., Thiran, J.P., Karimi, D., Bach Cuadra, M. (2025). "Domain shifts in infant brain diffusion MRI: Quantification and mitigation for fODF estimation." Human Brain Mapping.
Through-plane super-resolution with autoencoders in diffusion magnetic resonance imaging of the developing human brain
Kebiri, H., Canales-Rodriguez, E.J., Lajous, H., de Dumast, P., Girard, G., Aleman-Gomez, Y., Koob, M., Jakab, A., Bach Cuadra, M. (2021). "Through-plane super-resolution with autoencoders in diffusion magnetic resonance imaging of the developing human brain." Frontiers in Neurology.
Uncertainty-Aware Functional Parcellation of the Neonatal Thalamus Using a Large dHCP rs-fMRI Cohort (abstract)
Kebiri, H., Delavari, F., Van De Ville, D., Jorge, J., Bach Cuadra, M. (2025). "Uncertainty-Aware Functional Parcellation of the Neonatal Thalamus Using a Large dHCP rs-fMRI Cohort." OHBM, Brisbane, Australia.
Functional organization of the neonatal thalamus across development depicted by functional MRI
Kebiri, H., Delavari, F., Van De Ville, D., Jorge*, J., Bach Cuadra*, M. (2025). "Functional organization of the neonatal thalamus across development depicted by functional MRI." Imaging Neuroscience.
Deep learning microstructure estimation of developing brains from diffusion MRI: a newborn and fetal study
Kebiri, H., Gholipour, A., Vasung, L., Calixto, C., Krsnik, Z., Karimi*, D., Bach Cuadra*, M. (2024). "Deep learning microstructure estimation of developing brains from diffusion MRI: a newborn and fetal study." Medical Image Analysis.
TBSS++: A novel computational method for Tract-Based Spatial Statistics
Karimi, D., Kebiri, H., Gholipour, A. (2023). "TBSS++: A novel computational method for Tract-Based Spatial Statistics." arXiv.
Direct segmentation of brain white matter tracts in diffusion MRI
Kebiri, H., Gholipour, A., Bach Cuadra, M., Karimi, D. (2023). "Direct segmentation of brain white matter tracts in diffusion MRI." arXiv.
Improving cross-domain brain tissue segmentation in fetal MRI with synthetic data
Zalevskyi, V., Sanchez, T., Roulet, M., Aviles Verddera, J., Hutter, J., Kebiri, H., Bach Cuadra, M. (2024). "Improving cross-domain brain tissue segmentation in fetal MRI with synthetic data." MICCAI, Marrakesh, Morocco.
Spatio-temporal motion correction and iterative reconstruction of in-utero fetal fMRI
Taymourtash, A., Kebiri, H., Schwartz, E., Nenning, K.H., Tourbier, S., Kasprian, G., Prayer, D., Bach Cuadra, M., Langs, G. (2022). "Spatio-temporal motion correction and iterative reconstruction of in-utero fetal fMRI." MICCAI, Singapore.
Cross-Age and Cross-Site Domain Shift Impacts on Deep Learning-Based White Matter Fiber Estimation in Newborn and Baby Brains
Lin, R., Gholipour, A., Karimi, D., Thiran, J.P., Kebiri*, H., Bach Cuadra*, M. (2024). "Cross-Age and Cross-Site Domain Shift Impacts on Deep Learning-Based White Matter Fiber Estimation in Newborn and Baby Brains." IEEE ISBI, Athens, Greece.
Robust estimation of the microstructure of the early developing brain using deep learning
Kebiri, H., Gholipour, A., Lin, R., Vasung, L., Karimi*, D., Bach Cuadra*, M. (2023). "Robust estimation of the microstructure of the early developing brain using deep learning." MICCAI, Vancouver, Canada.
talks
Deep learning for fetal brain extraction in fetal MRI
Published:
Quantitative evaluation of enhanced multi-plane clinical fetal diffusion MRI with a crossing-fiber phantom
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Towards super-resolution reconstruction of fetal brain MRI
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Through-plane diffusion MRI super-resolution with autoencoders: validation on outlier replacement scheme for pre-term baby brains
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Deep learning applications in fetal MRI
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Medical Image Analysis & AI: Shedding light on developing human brains
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Cross-Age and Cross-Site Domain Shift Impacts on Deep Learning-Based White Matter Fiber Estimation in Newborn and Baby Brains
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Ground-truth effects in learning-based fiber orientation distribution estimation in neonatal brains
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Deep learning methods for enhanced MRI analysis of developing human brains
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Developmental thalamic functional connectivity and its potential implications for early neonatal consciousness
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Deep learning for fiber distribution estimation in developing brains: model, ground-truth & domain-shift impacts
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Decreasing cerebellar engagement across neonatal development revealed by sparse but temporally overlapping activation patterns
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teaching
Teaching experience 1
Undergraduate course, University 1, Department, 2014
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Teaching experience 2
Workshop, University 1, Department, 2015
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