提出新方法与数据集,提升复杂细胞形态分割精度
MorphoSeg: An Uncertainty-Aware Deep Learning Method for Biomedical Segmentation of Complex Cellular Morphologies
- 引入虚拟异常样本采样,增强模型对罕见形态的鲁棒性
- 在Dice系数上提升7.74%,豪斯多夫距离降低28.36%
- 适合生物医学图像分割、复杂形态建模的研究者使用
深度学习已革新医学与生物成像中的分割任务,但细胞分割仍因形状高度多样和复杂而困难。现有数据集多聚焦规则均匀形态,难以覆盖真实生物细胞的多样性。本文构建了新型基准数据集Ntera-2(NT2)细胞,涵盖多种分化阶段,展现复杂多变的细胞结构。为此提出不确定性感知的分割框架MorphoSeg,通过在训练中从低似然区域采样虚拟异常样本,提升模型泛化能力。大量实验表明,该方法显著提升分割性能:Dice相似系数最高提升7.74%,豪斯多夫距离下降28.36%。数据集与代码已开源。
原文摘要 · Abstract (English)
Deep learning has revolutionized medical and biological imaging, particularly in segmentation tasks. However, segmenting biological cells remains challenging due to the high variability and complexity of cell shapes. Addressing this challenge requires high-quality datasets that accurately represent the diverse morphologies found in biological cells. Existing cell segmentation datasets are often limited by their focus on regular and uniform shapes. In this paper, we introduce a novel benchmark dataset of Ntera-2 (NT2) cells, a pluripotent carcinoma cell line, exhibiting diverse morphologies across multiple stages of differentiation, capturing the intricate and heterogeneous cellular structures that complicate segmentation tasks. To address these challenges, we propose an uncertainty-aware deep learning framework for complex cellular morphology segmentation (MorphoSeg) by incorporating sampling of virtual outliers from low-likelihood regions during training. Our comprehensive experimental evaluations against state-of-the-art baselines demonstrate that MorphoSeg significantly enhances segmentation accuracy, achieving up to a 7.74% increase in the Dice Similarity Coefficient (DSC) and a 28.36% reduction in the Hausdorff Distance. These findings highlight the effectiveness of our dataset and methodology in advancing cell segmentation capabilities, especially for complex and variable cell morphologies. The dataset and source code is publicly available at https://github.com/RanchoGoose/MorphoSeg.
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