Abstract
Accurate multiclass segmentation of the Circle of Willis (CoW) is essential for neurovascular disease management but remains challenging due to complex vascular topology and variable morphology. Existing deep learning methods often suffer from vascular discontinuities and inter-class misclassification, while current topological loss functions incur prohibitive computational costs in 3D multiclass settings. To address these limitations, we propose an Anatomically-Guided Topology-Aware Loss (AG-TAL) and introduce a large-scale, multi-center CoW dataset with unified annotations to facilitate robust model training. AG-TAL specifically integrates a radius-aware Dice loss to address class imbalance in small vessels, a breakage-aware clDice loss that utilizes group convolutions to efficiently preserve local connectivity, and an adjacency-aware co-occurrence loss that leverages anatomical priors to enforce distinct boundaries between neighboring arteries. Evaluated using 5-fold cross-validation, AG-TAL achieved an average Dice score of 80.85% for all CoW arteries, with small arteries notably higher by 1.05-3.09% compared to state-of-the-art methods. Across six independent datasets, the performance of AG-TAL achieved Dice scores ranging from 74.46% to 81.17% for all CoW arteries, with improvements of 2.20% to 9.98% for small arteries compared to other methods. This study demonstrates the superiority of AG-TAL in identifying multiclass CoW arteries and its ability to generalize well to multiple independent datasets. Furthermore, reliability analyses and clinical applications in an Alzheimer's disease cohort validate the AG-TAL's robustness and its potential for discovering imaging-based morphological biomarkers.
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Dec 29, 2023cs.CV
The Circle of Willis (CoW) is an important network of arteries connecting major circulations of the brain. Its vascular architecture is believed to influence the risk, severity, and outcome of serious neurovascular diseases. However, characterizing the highly variable CoW anatomy remains a manual and time-consuming expert task. The CoW is commonly imaged by two non-invasive angiographic imaging modalities, magnetic resonance angiography (MRA) and computed tomography angiography (CTA), yet few datasets with annotated CoW anatomy exist, and there have been no established benchmarks for comparing CoW segmentation algorithms. We organized the TopCoW benchmark challenge alongside the release of an annotated CoW dataset with 125 paired MRA and CTA scans from the same patients. Voxel-level annotations for 13 vessel components were created using virtual reality technology and verified by clinical experts. Participants submitted algorithms for CoW segmentation and variant classification, which we evaluated on internal and external test sets comprising 226 scans from over five centers. The benchmark includes voxel-level segmentation, CoW component detection, CoW variant classification, and two clinical application tasks. We received submissions from over 250 participants across six continents. Top-performing teams achieved over 90% Dice scores for CoW segmentation, over 80% F1 scores for detecting key vessel components, and over 70% balanced accuracy in CoW variant classification across nearly all test sets. The best algorithms also supported clinically relevant downstream tasks by accurately classifying fetal-type posterior cerebral arteries and localizing aneurysms in relation to CoW anatomy. This benchmark demonstrated the utility of CoW segmentation algorithms for some downstream clinical applications with explainability.
Kaiyuan Yang, Fabio Musio, Yihui Ma +112
Jun 10, 2026cs.CV
Segmenting the Circle of Willis (CoW) from Magnetic Resonance Angiography (MRA) is challenging due to complex topology and thin vascular structures that are prone to fragmentation. Standard Convolutional Neural Networks (CNNs) often fail to capture these topological constraints, resulting in "broken vessel" artifacts. To address this, we propose the Anatomically Conditioned Recurrent Refinement U-Net (AC2RUNet). Our architecture decouples segmentation into two streams: a Static Stream that extracts invariant anatomical features and a lightweight Dynamic Stream that iteratively refines topological errors over time. We further introduce a dynamic curriculum learning strategy that transitions from high-recall geometric supervision to topology-aware constraints. Validated on the TopCoW dataset, AC2RUNet substantially reduces Hausdorff Distance (4.72 mm vs 9.17 mm) and Betti number errors (0.19 vs 0.40), improving topological connectivity over the nnU-Net baseline while maintaining comparable volumetric Dice.
Juraj Perić, Marija Habijan, Dario Mužević +3
Jun 19, 2026eess.IV
In this work, we present SemanticVessel, a dataset for fine-grained brain vessel segmentation in computed tomography angiography scans. Based on the detailed contrast provided by dynamic 4D-CTA scans, we generate segmentation traces for arteries and veins. We then use intensity-guided region growing to obtain segmentations of the majority of vascular territories in the human brain, which are refined and annotated with 20 unique arterial classes by an expert radiologist. Unlike existing datasets, where minor arteries are discarded as background content, we merge these minor arteries into a generic arterial class. Due to the multiple-phase acquisition of dynamic 4D-CTA, labels for a single phase can be re-used for other phases in the same series, greatly increasing the size of our dataset with no additional annotation cost. The results show that models trained with the additional generic artery class produce better fine-grained segmentations across the board. We will make our code, annotation GUI, and model weights available to the scientific community. Code, weights, and data will be made available on https://github.com/alceballosa/robust-vessel-segmentation
Chu-Hsuan Lin, Alberto Mario Ceballos-Arroyo, Jisoo Kim +4