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版本更新 · v2arXiv:2507.22953

CADS: A Comprehensive Anatomical Dataset and Segmentation for Whole-Body Anatomy in Computed Tomography

Murong Xu, Fernando Navarro, Maksym Fritsak, Ibrahim Ethem Hamamci, Suprosanna Shit, Bastian Wittmann, Sezgin Er, Sebastian M. Christ 等 33 位作者

原文摘要

Volumetric computed tomography (CT) segmentation supports quantitative image analysis, but most AI-based methods remain organ-specific, with fragmented models, inconsistent label definitions, and heterogeneous training and evaluation protocols. Here we present CADS, a unified data-model framework for scalable and generalizable whole-body CT segmentation. We construct a SNOMED-CT-referenced anatomical label space harmonizing heterogeneous cohorts from over 100 imaging centers, yielding complete annotations of 167 structures across 22,022 CT volumes and markedly expanding anatomical coverage and scale beyond existing resources. To complete labels on sparsely annotated CTs, we combine self-training with shape-informed quality control based on neural implicit functions, curating high-quality pseudo-labels. Trained on this resource, CADS shows robust whole-body segmentation across distribution shifts and improved performance relative to state-of-the-art approaches across 18 public datasets. We further validate it in an independent, expert-reviewed real-world oncology cohort of 2,864 CTs. The curated dataset, pretrained models, and user-friendly software together provide an accessible, reproducible foundation for large-scale anatomical segmentation and computational anatomy research.

eess.IV · cs.CV

版本更新 · v4arXiv:2603.23398

Graph Energy Matching: Transport-Aligned Energy-Based Modeling for Graph Generation

Michal Balcerak, Suprosanna Shit, Chinmay Prabhakar, Sebastian Kaltenbach, Michael S. Albergo, Yilun Du, Bjoern Menze

原文摘要

Generative modeling of discrete data, such as graphs, underpins many scientific and industrial applications, including molecular discovery and materials design. In these domains, probabilistic inference is particularly valuable, as it enables composable generation and principled incorporation of desired constraints, such as structural or functional properties. Energy-based models naturally support this goal by capturing relative likelihoods and enabling composable inference by directly enforcing constraints during inference. However, discrete energy-based models typically struggle with efficient and high-quality sampling, as off-support regions often contain spurious local minima, trapping samplers and causing training instabilities, resulting in a fidelity gap compared to discrete diffusion models. To address this gap, we introduce Graph Energy Matching (GEM), a discrete generative framework inspired by the Jordan-Kinderlehrer-Otto (JKO) transport-map optimization perspective. GEM learns a permutation-invariant potential energy that simultaneously guides discrete transport from noise toward high-likelihood graph regions and refines samples within these regions. We further introduce a sampling protocol leveraging an energy-based switching strategy, seamlessly bridging rapid, gradient-guided transport and a local mixing regime for effective exploration. On molecular graph benchmarks, GEM matches or surpasses strong discrete diffusion baselines on most reported metrics. Beyond improving generation quality, GEM's relative likelihood modeling enables targeted exploration, facilitating compositional generation, property-constrained sampling, and interpolation between graphs. Project page: https://michalbalcerak.ai/graph-energy-matching/.

cs.LG · cs.AI · stat.ML

新论文 · v1arXiv:2611.11602

Martine: Benchmarking Multi-View 3D Surface Reconstruction Across Viewpoint Coverage, Resolution, and Lighting

Robin Bruneau, Baptiste Brument, Frederic Giraud, Bastian Sigrist, Sascha Jecklin, Philipp Fürnstahl, Bjoern Menze, Lilian Calvet

原文摘要

Controlled acquisition setups are widely used for high-accuracy multi-view 3D surface reconstruction, as they allow sensor configuration, image resolution, viewpoint distribution, and illumination to be specified. Yet benchmarking remains difficult, since reconstruction accuracy depends jointly on the reconstruction paradigm, object properties, and acquisition regime. Existing benchmarks often restrict viewpoint coverage, resolution, or illumination, which can bias comparisons towards methods suited to the chosen setting. Others lack accurate 3D ground truth or quantified image-to-geometry alignment, limiting their use for metric surface evaluation. We introduce Martine, a benchmark for controlled 3D object surface reconstruction. Martine comprises 28 objects, including transparent materials and fine structures, captured at 9568 x 6376 pixels from 84 views over a spherical cap under both single-light and multi-light regimes. It provides object-independent camera calibration, accurate 3D ground-truth scans, calibration and image-to-geometry accuracy quantified on test images, and 3D property masks for analysing errors by material properties, visibility, curvature and fine structures. Experiments across photogrammetry, classical multi-view stereo, neural implicit surfaces, Gaussian-splatting-based reconstruction, and multi-view photometric stereo show that Martine enables regime-aware evaluation with explicit control over reference-data accuracy. The benchmark resolves sub-millimetric reconstruction differences, with a best observed Chamfer distance of 0.058 mm over the evaluated visible surface.

cs.CV

版本更新 · v2arXiv:2601.14066

VERIDAH: Solving Enumeration Anomaly Aware Vertebra Labeling across Imaging Sequences

Hendrik Möller, Hanna Schoen, Robert Graf, Matan Atad, Nathan Molinier, Anjany Sekuboyina, Bettina K. Budai, Fabian Bamberg 等 17 位作者

原文摘要

The human spine commonly consists of seven cervical, twelve thoracic, and five lumbar vertebrae. However, enumeration anomalies may result in individuals having eleven or thirteen thoracic vertebrae and four or six lumbar vertebrae. Although the identification of enumeration anomalies has potential clinical implications for chronic back pain and operation planning, the thoracolumbar junction is often poorly assessed and rarely described in clinical reports. Additionally, even though multiple deep-learning-based vertebra labeling algorithms exist, there is a lack of methods to automatically label enumeration anomalies. Our work closes that gap by introducing "Vertebra Identification with Anomaly Handling" (VERIDAH), a novel vertebra labeling algorithm based on multiple classification heads combined with a weighted vertebra sequence prediction algorithm. We show that our approach surpasses existing models on T2w TSE sagittal (98.30% vs. 94.24% of subjects with all vertebrae correctly labeled, p < 0.001) and CT imaging (99.18% vs. 77.26% of subjects with all vertebrae correctly labeled, p < 0.001) and works in arbitrary field-of-view images. VERIDAH correctly labeled the presence 2 Möller et al. of thoracic enumeration anomalies in 87.80% and 96.30% of T2w and CT images, respectively, and lumbar enumeration anomalies in 94.48% and 97.22% for T2w and CT, respectively. Our code and models are available at: https://github.com/Hendrik-code/spineps.

cs.CV