arXiv Computer Vision

Mind the Gap: Mesh-Guided Repair of Broken Vessels

The paper introduces a mesh-guided post‑processing framework that repairs broken vessel segmentations produced by nnU‑Net. By fitting a deformable template mesh to each predicted binary mask, the method conservatively reconnects disconnected components using thin bridge candidates while respecting foreground‑growth constraints. Evaluation on aorta, Circle of Willis, and pulmonary artery datasets shows that connectivity metrics (ccDice and Betti‑0) improve dramatically with negligible change in overall overlap (Dice).

arXiv AI
Jun 12

Transformer-Guided Graph Attention for Direct Cardiac Mesh Reconstruction: A Structural Digital Twin Framework

arXiv:2606. 13188v1 Announce Type: cross Abstract: Building patient-specific cardiac models sits at the heart of precision cardiology, yet getting those models into clinical use keeps running into the same wall: mesh generation is slow, messy, and frustrating.

By Abhishek H S, Akash Ganamukhi, Abhimanyu Suresh, Aditya G Hiremath, Prasad B Honnavalli, Adithya Balasubramanyam
arXiv AI
Jul 7

From Raw Segmentations to Simulation-Ready Cardiac Meshes: An Automated Framework for Anatomical Reconstruction and Virtual Cohort Generation

arXiv:2607. 02564v1 Announce Type: cross Abstract: Computational models of the human heart are widely used to study electromechanical and fluid-dynamical cardiac function and to support applications such as in silico clinical trials.

By Francesco Fabbri, Martino Andrea Scarpolini, Paolo Ciancarella, Francesco Tudisco, Roberto Verzicco, Alessandro Ricci, Francesco Viola
arXiv Machine Learning
Jul 15

The TopCoW Challenge -- Topology-Aware Circle of Willis Segmentation for CT and MR Angiography

arXiv:2312. 17670v5 Announce Type: replace-cross Abstract: The Circle of Willis (CoW) is an important network of arteries connecting major circulations of the brain.

By Kaiyuan Yang, Fabio Musio, Yihui Ma, Norman Juchler, Johannes C. Paetzold, Rami Al-Maskari, Luciano H\"oher, Hongwei Bran Li, Ibrahim Ethem Hamamci, Anjany Sekuboyina, Suprosanna Shit, Houjing Huang, Chinmay Prabhakar, Ezequiel de la Rosa, Bastian Wittmann, Diana Waldmannstetter, Florian Kofler, Fernando Navarro, Martin J. Menten, Ivan Ezhov, Daniel Rueckert, Iris N. Vos, Ynte M. Ruigrok, Birgitta K. Velthuis, Hugo J. Kuijf, Pengcheng Shi, Wei Liu, Ting Ma, Maximilian R. Rokuss, Yannick Kirchhoff, Fabian Isensee, Klaus Maier-Hein, Chengcheng Zhu, Huilin Zhao, Philippe Bijlenga, Julien H\"ammerli, Catherine Wurster, Laura Westphal, Jeroen Bisschop, Elisa Colombo, Hakim Baazaoui, Hannah-Lea Handelsmann, Andrew Makmur, James Hallinan, Amrish Soundararajan, Benedikt Wiestler, Jan S. Kirschke, Evamaria O. Riedel, Roland Wiest, Emmanuel Montagnon, Laurent Letourneau-Guillon, Kwanseok Oh, Dahye Lee, Orhun Utku Aydin, Adam Hilbert, Jana Rieger, Dimitrios Rallios, Satoru Tanioka, Alexander Koch, Dietmar Frey, Abdul Qayyum, Moona Mazher, Steven Niederer, Nico Disch, Julius C. Holzschuh, Dominic LaBella, Francesco Galati, Daniele Falcetta, Maria A. Zuluaga, Chaolong Lin, Haoran Zhao, Zehan Zhang, Minghui Zhang, Xin You, Hanxiao Zhang, Guang-Zhong Yang, Yun Gu, Sinyoung Ra, Jongyun Hwang, Hyunjin Park, Junqiang Chen, Marek Wodzinski, Henning M\"uller, Nesrin Mansouri, Florent Autrusseau, Cansu Yalcin, Rachika E. Hamadache, Clara Lisazo, Joaquim Salvi, Adri\`a Casamitjana, Xavier Llad\'o, Uma Maria Lal-Trehan Estrada, Valeriia Abramova, Luca Giancardo, Arnau Oliver, Paula Casademunt, Adrian Galdran, Matteo Delucchi, Oscar Camara, Jialu Liu, Haibin Huang, Yue Cui, Zehang Lin, Yusheng Liu, Shunzhi Zhu, Tatsat R. Patel, Adnan H. Siddiqui, Vincent M. Tutino, Maysam Orouskhani, Huayu Wang, Mahmud Mossa-Basha, Yuki Sato, Sven Hirsch, Susanne Wegener, Bjoern Menze
arXiv Computer Vision
Aug 27

Steer the Sampling, Not the Kernel Grid: Geometry-Guided Sampling Operator for Volumetric Segmentation

The paper introduces a geometry‑guided sampling operator that directs feature sampling rather than altering convolution kernels in 3D encoder‑decoder networks. By predicting local orientations and bounded step sizes, the operator samples symmetrically around each voxel, generating compact geometric and boundary cues that improve fine‑structure segmentation. Replacing stride‑1 and stride‑2 operations in a 3D U‑Net yields consistent gains on BraTS, MSD Hepatic Vessel, and TDSC‑ABUS datasets, with better boundary metrics and fewer parameters, and the operator can be integrated into other backbones without architectural changes.

By Sizhe Wang, Himashi Peiris, Zhaolin Chen
arXiv Machine Learning
Jun 18

Clinically Aligned Geometry Constraints for Robust IVUS Vessel Boundary Segmentation

arXiv:2606. 18723v1 Announce Type: cross Abstract: Intravascular ultrasound (IVUS) lumen and external elastic membrane (EEM) segmentation is important for quantitative coronary plaque burden assessment.

By Yunshu Chen, Litao Yang, Giuseppe Di Giovanni, Jordan Tan, Deval Mehta, Andrew Lin, Derek Chew, Masasi Fujino, Julie Butters, Stephen Nicholls, Zongyuan Ge, Kyung Hoon Cho
arXiv AI
6d ago

ReG-SAM: Reference Graph-Driven SAM for 2D Foundational Vessel Segmentation

ReG-SAM is a SAM-based framework designed for 2D vessel segmentation in medical images. It introduces reference graph prompt embeddings (GPEs) and vascular prototype embeddings (VPEs) to capture global spatial and fine-grained modality-specific vessel features, respectively. By building a modality-wise vascular database and learning these embeddings from reference masks, ReG-SAM consistently outperforms existing baselines across 19 datasets, especially on thin vessels.

By Donghang Lyu, Zichen Zhang, Oleh Dzyubachyk, Marius Staring