Decoupled Single-Mask Annotation Noise Detection via Cross-Sectional Patch Self-Consistency
Authors: Yinheng Zhu, Xiaowei Xu
Organizations: Tsinghua University, Beijing, China · Guangdong Provincial People’s Hospital, Guangzhou, China
Abstract
Vascular computed tomography datasets are commonly annotated only once per scan, yielding the pervasive yet under addressed problem of single mask annotation noise. Existing solutions either require costly multirater fusion or are coupled with network training, preventing explicit auditing of where and why labels fail. We introduce a decoupled framework for single-mask annotation noise detection that leverages cross-sectional patch self-consistency to produce interpretable and auditable noise evidence. Tubular anatomy exhibits strong cross-sectional recurrence: patches extracted orthogonally along vessel centrelines recur in appearance across locations and subjects. Thus, anatomically similar patches should have consistent masks, and disagreement signals unreliable annotation. Our method samples cross-sectional patches, retrieves intensity-equivalent neighbours via scalable vector search, and computes a patch-level noise score from statistical mask disagreement, yielding explicit image-mask evidence for every flagged region. Aggregating scores produces scan-level quality maps for dataset quality assessment or quality-weighted training. Experiments on the coronary CT dataset validate the detected noise for improving training robustness and reveal systematic annotation biases. Specifically, transverse and oblique vessels exhibit 5.1 times higher error rates than axis-aligned structures, with additional correlations to cross-sectional area and intensity. Code is available here.
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
Accurate segmentation of the coronary vessel lumen is a prerequisite for quantitative assessment of atherosclerotic plaque and perivascular adipose tissue in coronary computed tomography angiography (CCTA). Cardiologists rely on semi-automated methods for this task because manual vessel tracing and segmentation are labour-intensive. Although many automated methods have been proposed, their validation remains limited by the lack of large, high-quality publicly available datasets. We provide a new dataset of voxel-wise annotations of the vessel lumen and coronary segments, alongside centerlines, and mesh surfaces for 800 scans from the publicly available ImageCAS dataset. Using this dataset, we benchmark established lumen segmentation methods against inter-observer variability, stratifying performance by disease, image quality, coronary dominance, coronary segment, vessel diameter, and lumen attenuation. These labels allow segmentation accuracy to be described in anatomical and clinical context rather than reported as a single aggregate score. The dataset supports the development and validation of methods for lumen segmentation, plaque and perivascular quantification, and haemodynamic modelling.
Kit M. Bransby, Esther Øksnebjerg, Kristoffer Kjær +7
Accurate segmentation of hepatic and portal vessels in contrast-enhanced computed tomography angiography (CTA) remains challenging due to complex vascular topology, peripheral visibility limitations, and acquisition-induced ambiguities. While existing public datasets offer valuable benchmarks, few include clinically realistic annotation constraints. We introduce VEELA (Vessel Extraction and Extrication for Liver Analysis), a rigorously curated liver vessel dataset derived from 40 CTA scans inherited from the CHAOS grand-challenge cohort. All vessels were manually delineated slice-by-slice under multi-expert consensus, using a strict visibility-driven annotation policy and avoiding anatomically inferred interpolation. This design explicitly captures anatomical variability and imaging-related uncertainty. As a continuation of the CHAOS challenge, VEELA enables reproducible cross-benchmark evaluation while extending the scope to fine-grained hepatic and portal vessel segmentation. We further establish a standardized benchmarking framework and analyze complementary evaluation metrics, including topology-aware (clDice), overlap-based (IoU), boundary-sensitive (NSD), and geometry-aware (area, length) measures. Our results demonstrate that different metrics capture distinct aspects of vascular integrity, underscoring the necessity of multi-perspective evaluation for clinically meaningful vessel segmentation. VEELA is publicly released to facilitate reproducible research and support the development of robust vascular segmentation methods. Researchers can access the evaluation metrics, dataset, and submission platform at https://www.synapse.org/Synapse:syn65471967.