The paper presents a 3D foundation model for light sheet fluorescence microscopy (LSM) that is pretrained on a large curated set of 3D images from various organisms, stains, and imaging protocols. By jointly optimizing for masked reconstruction and image‑text alignment, the model learns transferable volumetric representations that dramatically reduce the need for annotated data. The pretrained backbone enables efficient few‑shot adaptation to downstream tasks such as segmentation, classification, and deblurring, consistently outperforming baselines according to standard metrics and expert evaluation.
By Adina Scheinfeld, Haotan Zhang, Shang Mu, Rudolf L. M. van Herten, Lucas Stoffl, Ali Erturk, Zhuhao Wu, Johannes C. Paetzold
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:2608. 19965v1 Announce Type: cross Abstract: Segmentation of curvilinear anatomical structures in 3D medical images remains challenging due to complex topology, severe class imbalance, weak contrast, and large variations in structure morphology.
By Sidi Mohamed Sid'El Moctar, Nicolas Vitry, H\'el\`ene Bouvrais
The growing number of medical vision foundation models highlights the need for effective model selection. However, mainstream selection methods rely on exhaustive fine-tuning, which is computationally expensive.
arXiv:2606. 23964v1 Announce Type: new Abstract: Self-supervised learning in fluorescence microscopy often relies on 2D projections, despite the inherently three-dimensional nature of cells.
By Amirhossein Kardoost, Lion Gleiter, Tingying Peng, Carsten Marr
arXiv:2609.21698v1 Announce Type: new
Abstract: Deep learning segmentation of renal tumors requires large annotated datasets, yet clinical deployments typically offer only a handful of tumor-positive...
By Ekaterina Sedykh, Salme Ussanov, Dmytro Fedorenko, Dmytro Fishman
arXiv:2608.24364v1 Announce Type: new
Abstract: Self-supervised pretraining enables transferable representations for medical imaging, yet most CT encoders remain biased toward coarse semantic underst...
By Sebasti\'an Gonz\'alez, Karen Sanchez, Jos\'e M. Saavedra, Marcelo Pizarro, Bernard Ghanem
arXiv:2607. 16065v1 Announce Type: cross Abstract: Retinal layer segmentation in Optical Coherence Tomography (OCT) is a fundamental step for extracting quantitative biomarkers of retinal structure.
By Iker Moran-Cavero, Monica Hernandez, Elvira Mayordomo, Naiara Artiaga, Beatriz Pardi\~nas, Beatriz Cordon, Elena Garcia-Martin
arXiv:2606. 06983v1 Announce Type: cross Abstract: Computational pathology requires visual representations that transfer across diverse clinical endpoints and remain robust to variation in magnification, staining, scanner type, slide preparation, and input resolution.
By Bokai Zhao, Yiyang Zhang, Long Bai, Tai Ma, Hanqing Chao, Minfeng Xu
arXiv:2608.30870v1 Announce Type: new
Abstract: Semantic segmentation in 3D Gaussian Splatting (3DGS) is crucial for advancing 3D scene understanding. Existing methods predominantly rely on feature d...
By Kun Cao, Di Wang, Haibin Zhu, Haozhi Huang, Xu Wang, Zheng Shi, Guanghua Yang
arXiv:2609.26756v1 Announce Type: new
Abstract: X-ray is medicine's most widely used imaging modality, yet remains among its least quantitative. Unlike volumetric modalities like CT or MRI, X-ray col...
By Victor Ion Butoi, Vivek Gopalakrishnan, John V. Guttag, Adrian V. Dalca, Neel Dey
arXiv:2608.30844v1 Announce Type: cross
Abstract: Interactive lesion segmentation in whole-body PET/CT requires a model to provide a strong initial prediction while also responding efficiently to spa...
By Xinglong Liang, Chunyao Lu, Tianyu Zhang, Jiaju Huang, Tao Tan, Yunchao Yin, Lishan Cai