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arXiv · 2603.25945

Adapting Segment Anything Model 3 for Concept-Driven Lesion Segmentation in Medical Images: An Experimental Study

Guoping Xu·Jayaram K. Udupa·Yubing Tong·Xin Long·Ying Zhang·Jie Deng·Weiguo Lu·You Zhang
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Abstract

Accurate lesion segmentation is essential in medical image analysis, yet most existing methods are designed for specific anatomical sites or imaging modalities, limiting their generalizability. Recent vision-language foundation models enable concept-driven segmentation in natural images, offering a promising direction for more flexible medical image analysis. However, concept-prompt-based lesion segmentation, particularly with the latest Segment Anything Model 3 (SAM3), remains underexplored. In this work, we present a systematic evaluation of SAM3 for lesion segmentation. We assess its performance using geometric bounding boxes and concept-based text and image prompts across multiple modalities, including multiparametric MRI, CT, ultrasound, dermoscopy, and endoscopy. To improve robustness, we incorporate additional prior knowledge, such as adjacent-slice predictions, multiparametric information, and prior annotations. We further compare different fine-tuning strategies, including partial module tuning, adapter-based methods, and full-model optimization. Experiments on 13 datasets covering 11 lesion types demonstrate that SAM3 achieves strong cross-modality generalization, reliable concept-driven segmentation, and accurate lesion delineation. These results highlight the potential of concept-based foundation models for scalable and practical medical image segmentation. Code and trained models will be released at: https://github.com/apple1986/lesion-sam3

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Guoping Xu, Jayaram K. Udupa, Yubing Tong, Xin Long, Ying Zhang, Jie Deng, Weiguo Lu, You Zhang. 2026-03-26. Adapting Segment Anything Model 3 for Concept-Driven Lesion Segmentation in Medical Images: An Experimental Study. https://arxiv.org/abs/2603.25945

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