The study introduces a physics‑guided, self‑supervised deep learning framework that estimates macromolecular pool fraction (MPF) maps directly from conventional clinical brain MRI sequences (T1‑, T2‑, and FLAIR) without requiring specialized quantitative magnetization transfer scans. By embedding an analytical two‑pool magnetization transfer model and conditioning on acquisition parameters, the method was trained on 7,705 multisite, multivendor MRI sessions and achieved consistent MPF values across vendors and protocols, with a 35.6% reduction in lesions of demyelinating disease compared to normal‑appearing white matter. Cross‑protocol validation in a healthy volunteer showed a mean voxel‑wise absolute difference of 7.7% and a concordance correlation coefficient of 0.888, demonstrating robust cross‑protocol performance.
By Jelmer van Lune, Miha Fuderer, Oscar van der Heide, Matteo Maspero, Martin B. Schilder, Jan Willem Dankbaar, Stefano Mandija, Alessandro Sbrizzi
arXiv:2604. 27277v3 Announce Type: replace-cross Abstract: Brain MRI underpins a wide range of neuroscientific and clinical applications, yet most learning-based methods remain task-specific and require substantial labeled data.
By Yizhou Wu, Shansong Wang, Yuheng Li, Mojtaba Safari, Mingzhe Hu, Chih-Wei Chang, Harini Veeraraghavan, Xiaofeng Yang
arXiv:2602.03317v2 Announce Type: replace-cross
Abstract: Quantitative imaging methods, such as magnetic resonance fingerprinting (MRF), aim to extract interpretable pathology biomarkers by estimatin...
By Alex Finkelstein, Ron Moneta, Or Zohar, Michal Rivlin, Moritz Zaiss, Dinora Friedmann Morvinski, Or Perlman
The paper introduces SYMBA, a self‑supervised pretraining framework tailored for structural T1‑weighted brain MRI. SYMBA uses anatomically constrained masking, a multi‑scale structural similarity reconstruction loss, and a progressive curriculum to capture distributed morphometric patterns. Evaluated on nine heterogeneous cohorts and two unseen datasets, SYMBA outperforms existing neuroimaging foundation models, achieving high AUROC scores for Alzheimer’s disease classification, mild cognitive impairment conversion, and amyloid status prediction, and shows strong sample efficiency in low‑label settings.
By Nuria Balb\'as-Esteban, Albert Belenguer-Llorens, Elaheh Moradi, Jussi Tohka, Vanessa G\'omez-Verdejo, Carlos Sevilla-Salcedo
arXiv:2610.33124v1 Announce Type: cross
Abstract: 4D Flow MRI promises opportunities for non-invasive mapping of neurovascular hemodynamics, but its clinical utility faces trade-offs between resoluti...
By Oliver Welin Odeback, Nerea Gonz\'alez-Aranceta, Sebasti\'an Jofre, Javier Bisbal, Edward Ferdian, Alistair A. Young, Pia Callmer, Sameer A. Ansari, Mia Bonini, David Nordsletten, Patrick Winter, Susanne Schnell, Tobias Granberg, Alexander Fyrdahl, David Marlevi
arXiv:2606. 00100v1 Announce Type: cross Abstract: Self-supervised deep learning-based methods have shown great promise for accelerated magnetic resonance imaging (MRI) reconstruction, achieving high image quality without requiring fully sampled data for training.
By Tongxi Song, Ziyu Li, Zihan Li, Wen Zhong, Congyu Liao, Yang Yang, Hua Guo, Wenchuan Wu, Qiyuan Tian
arXiv:2607. 17782v1 Announce Type: cross Abstract: Foundation models pretrained using self-supervised learning have transformed computer vision by learning transferable representations from large-scale unlabeled data.
By Moona Mazher, Abdul Qayyum, Steven A. Niederer, Daniel C. Alexander
arXiv:2606.13315v2 Announce Type: replace
Abstract: MRI self-supervised learning (SSL) has largely emphasized segmentation and dense prediction, while controlled studies of how alternative pretrainin...
By Esra Erg\"un, Hersh Chandarana, Dan Sodickson, Gozde Unal
The paper introduces Neuro‑JEPA, a sparse multimodal foundation model that learns unified representations of brain MRI across T1w, T2w, and FLAIR sequences using a latent predictive objective and a Mixture‑of‑Experts architecture. It was pretrained on over 1.5 million scans from 428,647 studies and systematically evaluates architectural, masking, objective, and sparsity choices for robust multimodal representation learning. Across 47 tasks from three health systems and 12 public datasets, Neuro‑JEPA consistently outperforms a simple CNN baseline, demonstrating its effectiveness for both clinical and research applications.
By Haoxu Huang, Long Chen, Jingyun Chen, Jinu Hyun, James Ryan Loftus, Kara Melmed, Daniel Orringer, Jennifer Frontera, Seena Dehkharghani, Arjun Masurkar, Narges Razavian
The paper introduces SIMS-MRI, a self‑supervised framework that performs single‑subject multi‑view MRI super‑resolution using implicit neural representations. It processes anisotropic multi‑view scans without pre‑ or post‑processing, employing a multi‑resolution hash‑encoded representation and learned inter‑view alignment to produce isotropic reconstructions. The method is validated on simulated brain and clinical prostate MRI datasets, and the code will be publicly released.
By Heejong Kim, Abhishek Thanki, Roel van Herten, Daniel Margolis, Mert R Sabuncu
arXiv:2607. 20136v1 Announce Type: cross Abstract: Slice-to-volume reconstruction (SVR) is the standard method for obtaining high-resolution (HR) 3D fetal brain volumes from motion-corrupted 2D MRI slice stacks acquired in multiple orientations.
By Busra Bulut, Maik Dannecker, Thomas Sanchez, Sara Neves Silva, Steven Jia, Jean-Baptiste Ledoux, Leo Pomar, Joanna Sichitiu, Yvan Gomez, Meriam Koob, Vincent Dunet, Maria Deprez, Guillaume Auzias, Francois Rousseau, Jana Hutter, Daniel Rueckert, Meritxell Bach Cuadra
arXiv:2610.28411v1 Announce Type: cross
Abstract: Deep learning models have become essential tools in medical imaging, yet training them end-to-end for diverse tasks remains challenging due to limite...
By Spiros Maggioros, Guray Erus, Gareth Harman, George Aidinis, Alexander Getka, Aristeidis Sotiras, Christos Davatzikos