ISBI, accepted, 2026.
Citation: Wang, S., Wei, S., Remedios, S.W., Zhang, J., Dewey, B., Blitz, A., Luciano, M.G., Carass, A. and Prince, J. (2026). "VAID: Valve Artifact Inpainting for Normal Pressure Hydrocephalus from a 3D MRI Diffusion Model." IEEE ISBI (accepted).
SPIE Medical Imaging, accepted, 2026.
Citation: Zhou, L., Bian, Z., Zhang, J., Saidha, S., Calabresi, P.A., Carass, A. and Prince, J.L. (2026). "Pipeline refinement on diffusion tractography and T1 tractography in the presence of multiple sclerosis lesions." SPIE Medical Imaging (accepted).
Tomography, 2026.
Citation: Li, C., Zhang, J., Dimov, A.V., Koehne de González, A.K., Prince, M.R., Li, J., Romano, D., Spincemaille, P., Nguyen, T.D., Brittenham, G.M. and Wang, Y. (2026). "MRI Quantification of Liver Fibrosis Using Diamagnetic Susceptibility: An Ex Vivo Validation Study." Tomography, 12(4), 46.
Annals of Clinical and Translational Neurology, accepted, 2026.
Citation: Nemeth, C., Sisman, M., Zhang, J., Shin, H.-G., Li, X., Turk, B., Fatemi, A., Nguyen, T. and Mallack, E. (2026). "Evidence of iron accumulation in cerebral adrenoleukodystrophy: a potential novel disease mechanism." Annals of Clinical and Translational Neurology (accepted).
Magnetic Resonance in Medicine, accepted, 2026.
Citation: Li, J., Deng, A., Li, C., Villar-Calle, P., Zhang, J., Dimov, A.V., Kim, J., Nguyen, T.D., Wang, Y., Weinsaft, J.W. and Spincemaille, P. (2026). "Feasibility of implicit neural representation learned motion compensation for 3D stack-of-spirals free-breathing cardiac quantitative susceptibility mapping." Magnetic Resonance in Medicine (accepted).
MIDL, accepted, 2026.
Citation: Hays, S.P., Zuo, L., Chaudhary, M.F.A., Bartz, K.M., Remedios, S.W., Zhang, J., Zhuo, J., Bilgel, M., Saidha, S., Mowry, E.M., Newsome, S.D., Prince, J.L., Dewey, B.E. and Carass, A. (2026). "Harmonizing MR Images Across 100+ Scanners: Multi-site Validation with Traveling Subjects and Real-world Protocols." MIDL (accepted).
ISBI, accepted, 2026.
Citation: Zhou, L., Bian, Z., Zhang, J., Dewey, B., Saidha, S., Calabresi, P., Carass, A. and Prince, J. (2026). "A Pipeline for DTI Indices and Connectivity Analysis Applied to a Longitudinal Multiple Sclerosis Cohort." IEEE ISBI (accepted).
IPMI, 2025.
Citation: Zhang, H., Hu, R., Chen, X., Liu, M., Wang, Y., Wang, R., Zhang, J., Li, G., Cheng, X. and Duan, J. (2025). "Unsupervised deformable image registration with structural nonparametric smoothing." IPMI, 108-124.
Medical Imaging with Deep Learning (MIDL), 2025.
Citation: Hays, S., Zuo, L., Dewey, B.E., Remedios, S., Zhang, J., Mowry, E.M., Newsome, S.D., Carass, A. and Prince, J.L. (2025). "An Unsupervised Approach for Artifact Severity Scoring in Multi-Contrast MR Images." MIDL.
SPIE Medical Imaging, 2025.
Citation: Rivas, C.A., Zhang, J., Wei, S., Remedios, S.W., Carass, A. and Prince, J.L. (2025). "Unique MS lesion identification from MRI." SPIE Medical Imaging, 13406, 592-599.
SPIE Medical Imaging, 2025.
Citation: Zhang, J., Zuo, L., Liu, Y., Remedios, S., Landman, B.A., Prince, J.L. and Carass, A. (2025). "Bi-directional MS lesion filling and synthesis using denoising diffusion implicit model-based lesion repainting." SPIE Medical Imaging, 13406, 217-223.
Medical Image Analysis, 2025.
Citation: Zhang, J., Zuo, L., Dewey, B.E., Remedios, S.W., Liu, Y., Hays, S.P., Pham, D.L., Mowry, E.M., Newsome, S.D., Calabresi, P.A., Saidha, S., Carass, A. and Prince, J.L. (2025). "UNISELF: A Unified Network with Instance normalization and Self-Ensembled Lesion Fusion for Multiple Sclerosis Lesion Segmentation." Medical Image Analysis, 103954.
Contemporary Clinical Trials, 2025.
Citation: Mowry, E.M., Qian, P., Meador, W., Lynch, S., Narayan, R., Borazanci, A., ... & treat-MS Trial Team (including Zhang, J.) (2025). "The TRaditional versus Early Aggressive Therapy for MS (TREAT-MS) trial: Design and baseline characteristics of participants." Contemporary Clinical Trials, 108117.
Magnetic Resonance in Medicine, 2025.
Citation: Li, J., Villar-Calle, P., Chiu, C., Reza, M., Narula, N., Li, C., Zhang, J., Nguyen, T.D., Wang, Y., Zhang, R.S. and Kim, J. (2025). "Spiral cardiac quantitative susceptibility mapping for differential cardiac chamber oxygenation—Initial validation in relation to invasive blood sampling." Magnetic Resonance in Medicine, 93(5), 2029-2039.
Neurosurgery, 2025.
Citation: Roberts, A., Zhang, J., Tozlu, C., Romano, D., Akkus, S., Kim, H., Sabuncu, M., Spincemaille, P., Li, J., Wang, Y., Wu, X. and Kopell, B. (2025). "Technical Feasibility of Quantitative Susceptibility Mapping Radiomics for Predicting Deep Brain Stimulation Outcomes in Parkinson’s Disease." Neurosurgery.
Magnetic Resonance in Medicine, 2025.
Citation: Li, C., Li, J., Zhang, J., Solomon, E., Dimov, A.V., Spincemaille, P., Nguyen, T.D., Prince, M.R. and Wang, Y. (2025). "Navigator motion-resolved MR fingerprinting using implicit neural representation (FINR): feasibility for free-breathing 3D whole-liver multiparametric mapping." Magnetic Resonance in Medicine, 95(1), 613-627.
IEEE Transactions on Circuits and Systems for Video Technology, 2025.
Citation: Chen, X., Hu, R., Zhang, J., Zhang, Y., Yue, X., Liu, M., Wang, Y. and Zhang, H. (2025). "Encoder-Only Image Registration." IEEE Transactions on Circuits and Systems for Video Technology.
Journal of Medical Imaging, 2025.
Citation: Remedios, S.W., Wei, S., Han, S., Zhang, J., Guo, L., Carass, A., Schilling, K.G., Korotcov, A., Pham, D.L., Prince, J.L. and Dewey, B.E. (2025). "ECLARE: Efficient cross-planar learning for anisotropic resolution enhancement." Journal of Medical Imaging, 13(2), 024001.
IEEE ISBI, 2024.
Citation: Zhang, J., Zuo, L., Dewey, B.E., Remedios, S.W., Pham, D.L., Carass, A. and Prince, J.L. (2024). "Towards an accurate and generalizable multiple sclerosis lesion segmentation model using self-ensembled lesion fusion." IEEE ISBI.
SPIE Medical Imaging, 2024.
Citation: Zhang, J., Zuo, L., Dewey, B.E., Remedios, S.W., Hays, S.P., Pham, D.L., Prince, J.L. and Carass, A. (2024). "Harmonization-enriched domain adaptation with light fine-tuning for multiple sclerosis lesion segmentation." SPIE Medical Imaging, 12930, 635-641.
Bioengineering, 2024.
Citation: Cho, J., Zhang, J., Spincemaille, P., Zhang, H., Nguyen, T.D., Zhang, S., Gupta, A. and Wang, Y. (2024). "Multi-Echo Complex Quantitative Susceptibility Mapping and Quantitative Blood Oxygen Level-Dependent Magnitude for Oxygen Extraction Fraction Mapping." Bioengineering, 11(2), 131.
Magnetic Resonance in Medicine, 2024.
Citation: Zhang, J., Nguyen, T.D., Solomon, E., Li, C., Zhang, Q., Li, J., Zhang, H., Spincemaille, P. and Wang, Y. (2024). "mcLARO: Multi-contrast learned acquisition and reconstruction optimization for simultaneous quantitative multi-parametric mapping." Magnetic Resonance in Medicine, 91(1), 344-356.
MICCAI, 2023.
Citation: Zhang, H., Wang, R., Hu, R., Zhang, J. and Li, J. (2023). "DEDA: Deep directed accumulator." MICCAI, 765-775.
IJCAI, 2023.
Citation: Zhang, H., Wang, R., Zhang, J., Liu, D., Li, C., Li, J. (2023). "Spatially Covariant Lesion Segmentation." IJCAI, 1713-1721.
Frontiers in Neuroscience, 2023.
Citation: Si, W., Guo, Y., Zhang, Q., Zhang, J., Wang, Y. and Feng, Y. (2023). "Quantitative susceptibility mapping using multi-channel convolutional neural networks with dipole-adaptive multi-frequency inputs." Frontiers in Neuroscience, 17, 1165446.
NeuroImage, 2023.
Citation: Zhang, J., Spincemaille, P., Zhang, H., Nguyen, T.D., Li, C., Li, J., Kovanlikaya, I., Sabuncu, M.R. and Wang, Y. (2023). "LARO: Learned acquisition and reconstruction optimization to accelerate quantitative susceptibility mapping." NeuroImage, 268, 119886.
Magnetic Resonance in Medicine, 2022.
Citation: Kim, J., Nguyen, T.D., Zhang, J., Gauthier, S.A., Marcille, M., Zhang, H., Cho, J., Spincemaille, P. and Wang, Y. (2022). "Subsecond accurate myelin water fraction reconstruction from FAST-T2 data with 3D UNET." Magnetic Resonance in Medicine, 87(6), 2979-2988.
NeuroImage: Clinical, 2022.
Citation: Zhang, H., Nguyen, T.D., Zhang, J., Marcille, M., Spincemaille, P., Wang, Y., Gauthier, S.A. and Sweeney, E.M. (2022). "QSMRim-Net: Imbalance-aware learning for identification of chronic active multiple sclerosis lesions on quantitative susceptibility maps." NeuroImage: Clinical, 34, 102979.
Magnetic Resonance in Medicine, 2022.
Citation: Cho, J., Zhang, J., Spincemaille, P., Zhang, H., Hubertus, S., Wen, Y., Jafari, R., Zhang, S., Nguyen, T.D., Dimov, A.V. and Gupta, A. (2022). "QQ-NET–using deep learning to solve quantitative susceptibility mapping and quantitative blood oxygen level dependent magnitude based oxygen extraction fraction mapping." Magnetic Resonance in Medicine, 87(3), 1583-1594.
MICCAI, 2021.
Citation: Zhang, J., Zhang, H., Li, C., Spincemaille, P., Sabuncu, M., Nguyen, T.D. and Wang, Y. (2021). "Temporal Feature Fusion with Sampling Pattern Optimization for Multi-echo Gradient Echo Acquisition and Image Reconstruction." MICCAI.
Medical Imaging with Deep Learning (MIDL), 2021.
Citation: Zhang, J., Zhang, H., Spincemaille, P., Nguyen, T., Sabuncu, M.R. and Wang, Y. (2021). "Hybrid optimization between iterative and network fine-tuning reconstructions for fast quantitative susceptibility mapping." MIDL.
IEEE ISBI, 2021.
Citation: Zhang, H., Zhang, J., Wang, R., Zhang, Q., Gauthier, S.A., Spincemaille, P., Nguyen, T.D. and Wang, Y. (2021). "Geometric Loss for Deep Multiple Sclerosis lesion Segmentation." IEEE ISBI.
Magnetic Resonance in Medicine, 2021.
Citation: Jafari, R., Spincemaille, P., Zhang, J., Nguyen, T.D., Luo, X., Cho, J., Margolis, D., Prince, M.R. and Wang, Y. (2021). "Deep neural network for water/fat separation: supervised training, unsupervised training, and no training." Magnetic Resonance in Medicine, 85(4), 2263-2277.
Machine Learning for Biomedical Imaging, 2021.
Citation: Zhang, J., Zhang, H., Sabuncu, M., Spincemaille, P., Nguyen, T. and Wang, Y. (2021). "Probabilistic Dipole Inversion for Adaptive Quantitative Susceptibility Mapping." Machine Learning for Biomedical Imaging, 1, 1-19.
AAAI, 2021.
Citation: Zhang, H., Zhang, J., Wang, R., Zhang, Q., Spincemaille, P., Nguyen, T.D. and Wang, Y. (2021). "Efficient Folded Attention for Medical Image Reconstruction and Segmentation." AAAI, 35(12), 10868-10876.
NeuroImage: Clinical, 2021.
Citation: Zhang, H., Zhang, J., Li, C., Sweeney, E.M., Spincemaille, P., Nguyen, T.D., Gauthier, S.A., Wang, Y. and Marcille, M. (2021). "ALL-Net: Anatomical information lesion-wise loss function integrated into neural network for multiple sclerosis lesion segmentation." NeuroImage: Clinical, 32, 102854.
MLMI at MICCAI, 2020.
Citation: Zhang, J., Zhang, H., Wang, A., Zhang, Q., Sabuncu, M., Spincemaille, P., Nguyen, T.D. and Wang, Y. (2020). "Extending LOUPE for K-space Under-sampling Pattern Optimization in Multi-coil MRI." MLMI@MICCAI.
Medical Imaging with Deep Learning (MIDL), 2020.
Citation: Zhang, J., Zhang, H., Sabuncu, M., Spincemaille, P., Nguyen, T. and Wang, Y. (2020). "Bayesian learning of probabilistic dipole inversion for quantitative susceptibility mapping." Medical Imaging with Deep Learning (MIDL).
NeuroImage, 2020.
Citation: Zhang, J., Liu, Z., Zhang, S., Zhang, H., Spincemaille, P., Nguyen, T.D., Sabuncu, M.R. and Wang, Y. (2020). "Fidelity imposed network edit (FINE) for solving ill-posed image reconstruction." NeuroImage, 211, 116579.
MICCAI, 2019.
Citation: Zhang, H., Zhang, J., Zhang, Q., Kim, J., Zhang, S., Gauthier, S.A., Spincemaille, P., Nguyen, T.D., Sabuncu, M. and Wang, Y. (2019). "Rsanet: Recurrent slice-wise attention network for multiple sclerosis lesion segmentation." MICCAI, 411-419.