Authors: Minjun Kim, Dong Ju Mun, Hwihun Jeong, Hangyeol Park, Haechang Lee, Se Young Chun, Jongho Lee
Organizations: Department of Electrical and Computer Engineering, Seoul National University, Seoul, Republic of Korea · Department of Psychiatry, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA
Abstract
In MRI, variations in scan parameters, sequence, or hardware can lead to discrepancies in image appearance, even for the same subject. These inconsistencies, known as domain shifts, can hinder image analysis and degrade the performance of deep learning models trained on data from specific target domains. MRI image harmonization aims to address these issues by aligning source domain images to the target domain images while preserving biological information such as anatomical structures. However, most existing harmonization approaches require access to both source and target domain data in training or test time. This dependence induces data sharing between institutions, raising concerns about patient privacy and substantially limiting the harmonization approaches that can be practically deployed in clinical settings. To overcome these limitations, we introduce TgtFreeHarmony, the harmonization framework tailored for target-free scenarios, eliminating the need for target domain data and any data sharing, enabling privacy-preserving harmonization directly within the source institution. Our approach estimates the target domain style by searching the manifold of MRI domain style constructed via a disentanglement-based generator using Bayesian optimization guided by the performance of a downstream task model, which is trained on target domain data. We evaluated our method on the brain tissue segmentation task across multiple institutes and demonstrated that it effectively harmonizes source images into target images, leading to improved downstream task performance. By enabling harmonization without any access to target-domain data, TgtFreeHarmony establishes a new direction of harmonization preserving data privacy that can be realistically deployed within clinical environments.
Multi-site functional MRI (fMRI) studies are essential for robust neuropsychiatric diagnosis yet suffer severe domain shifts from scanner heterogeneity, demographics, and site-specific acquisition protocols. Traditional domain adaptation requires concurrent source and target data access, violating clinical privacy regulations. Moreover, functional connectivity matrices lie on the Symmetric Positive Definite (SPD) manifold, where Euclidean operations cause geometric distortions corrupting diagnostic patterns. We propose BrainRiem, a source-free domain adaptation framework learning compact Riemannian brain prototypes via manifold-aware bi-level optimization. It employs the Log-Euclidean Metric to ensure prototypes remain valid SPD matrices, while Dirichlet Energy spectral calibration aligns their frequency characteristics with real brain networks. Only anonymized prototypes are transmitted to target sites, serving as stable anchors for training local models without source data access and reducing leakage under the evaluated attacks. Comprehensive experiments on ABIDE and REST-meta-MDD show BrainRiem consistently outperforms state-of-the-art source-free, traditional, and graph domain adaptation methods across diverse scanners and demographics. Notably, learned prototypes exhibit biologically interpretable connectivity patterns aligning with established neuroscience findings, validating the necessity of Riemannian geometry for brain network analysis.
Brain tumor segmentation in magnetic resonance imaging (MRI) is a critical task for diagnosis and treatment planning. Despite the success of deep learning architectures such as U-Net and its variants, performance degradation across datasets remains a major challenge, particularly under domain shift and limited annotated data. To address this issue, this study systematically evaluates how individual MRI sequences influence model robustness across two well-known datasets. A ResUNet-based framework is employed, where each modality is trained independently to isolate its effect under a controlled cross-dataset evaluation protocol with tumor size stratification, without target-domain training, or with limited domain adaptation. Results show that the T2f/FLAIR sequence achieves the best cross-dataset performance, with Dice scores exceeding 75%. It consistently outperforms other modalities across most tumor size ranges, while multi-sequence training further improves performance. Additionally, even limited target-domain adaptation yields rapid initial gains, reducing the need for extensive annotations and costly retraining. Our source code is publicly available at https://github.com/henrique-zan/brain_tumor_segmentation/.
Henrique Zan Grande, João G. Pitol, Lucas B. Schuck +3
Deploying multi-sequence magnetic resonance imaging (MRI) segmentation models to new clinical environments is challenging due to variations in scanners and acquisition protocols. Although existing TTA methods handle basic per-modality shifts, they often fail under a fundamental dual-shift problem, as their adaptation signals fail to capture modality-interaction shifts that disrupt inter-sequence consistency. To address this, we propose Variance-gated Inter-Sequence Test-time Adaptation (VISTA), a source-free framework that tackles modality-interaction shifts. First, we design an Inter-Sequence Intervention Generator (ISIG) that generates a set of consistency probes by swapping low-frequency spectra and entropy-localized patches across sequences, preserving anatomical semantics while challenging inter-sequence dependencies. Second, we introduce Cross-View Disagreement-Aware Pseudo Labeling (CDPL), which establishes a voxel-wise reliability metric using cross-view disagreement variance to dynamically gate self-training and enforce interventional consistency, encouraging the network to rely on robust anatomical semantics. Extensive experiments adapting from standard adult MRI (BraTS-GLI-Pre) to African low-field (BraTS-SSA) and pediatric (BraTS-PED) cohorts show improved performance over competing methods under clinical shifts, achieving absolute Dice improvements of +1.89% (SSA) and +2.82% (PED) over the source model. The code is available at https://github.com/dzp2095/VISTA.