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arXiv · 2401.13220

Segment Any Cell: A SAM-based Auto-prompting Fine-tuning Framework for Nuclei Segmentation

Saiyang Na·Yuzhi Guo·Feng Jiang·Hehuan Ma·Junzhou Huang
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Abstract

In the rapidly evolving field of AI research, foundational models like BERT and GPT have significantly advanced language and vision tasks. The advent of pretrain-prompting models such as ChatGPT and Segmentation Anything Model (SAM) has further revolutionized image segmentation. However, their applications in specialized areas, particularly in nuclei segmentation within medical imaging, reveal a key challenge: the generation of high-quality, informative prompts is as crucial as applying state-of-the-art (SOTA) fine-tuning techniques on foundation models. To address this, we introduce Segment Any Cell (SAC), an innovative framework that enhances SAM specifically for nuclei segmentation. SAC integrates a Low-Rank Adaptation (LoRA) within the attention layer of the Transformer to improve the fine-tuning process, outperforming existing SOTA methods. It also introduces an innovative auto-prompt generator that produces effective prompts to guide segmentation, a critical factor in handling the complexities of nuclei segmentation in biomedical imaging. Our extensive experiments demonstrate the superiority of SAC in nuclei segmentation tasks, proving its effectiveness as a tool for pathologists and researchers. Our contributions include a novel prompt generation strategy, automated adaptability for diverse segmentation tasks, the innovative application of Low-Rank Attention Adaptation in SAM, and a versatile framework for semantic segmentation challenges.

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Saiyang Na, Yuzhi Guo, Feng Jiang, Hehuan Ma, Junzhou Huang. 2024-01-24. Segment Any Cell: A SAM-based Auto-prompting Fine-tuning Framework for Nuclei Segmentation. https://arxiv.org/abs/2401.13220

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