整合多模态数据,打造可通用的轴突髓鞘分割工具。
Multi-Domain Data Aggregation for Axon and Myelin Segmentation in Histology Images
- 融合显微成像、物种与染色方式,构建跨域训练数据集
- 模型在跨域数据上表现优于单一模态专用模型(p=0.03077)
- 开源维护,支持科研人员快速部署与微调
量化组织学图像中轴突和髓鞘的特征(如轴突直径、髓鞘厚度、g比值)可揭示神经退行性疾病引起的微结构变化。自动组织分割是处理此类数据的重要工具,单张切片可能包含数千个轴突。深度学习使该任务快速可靠,但各研究组训练的数据差异大,导致模型难以跨组复用,受限于样本来源(不同部位、物种、遗传背景、病理状态)和成像技术多样(对比度、分辨率差异)。现有公开模型稀缺且维护不善。本文整合明场、电镜、拉曼光谱等多模态数据及小鼠、大鼠、兔、人等多物种数据,构建一个开源、持久可用的轴突与髓鞘分割通用模型。该模型便于科研人员处理自身数据,支持针对特定领域微调。我们评估了不同数据聚合策略的效果,结果表明该多域模型显著优于单模态专用模型(p=0.03077),在分布外数据上泛化能力更强,且更易使用与维护。关键工具已打包为持续维护的开源生态(https://github.com/axondeepseg/axondeepseg)。
原文摘要 · Abstract (English)
Quantifying axon and myelin properties (e.g., axon diameter, myelin thickness, g-ratio) in histology images can provide useful information about microstructural changes caused by neurodegenerative diseases. Automatic tissue segmentation is an important tool for these datasets, as a single stained section can contain up to thousands of axons. Advances in deep learning have made this task quick and reliable with minimal overhead, but a deep learning model trained by one research group will hardly ever be usable by other groups due to differences in their histology training data. This is partly due to subject diversity (different body parts, species, genetics, pathologies) and also to the range of modern microscopy imaging techniques resulting in a wide variability of image features (i.e., contrast, resolution). There is a pressing need to make AI accessible to neuroscience researchers to facilitate and accelerate their workflow, but publicly available models are scarce and poorly maintained. Our approach is to aggregate data from multiple imaging modalities (bright field, electron microscopy, Raman spectroscopy) and species (mouse, rat, rabbit, human), to create an open-source, durable tool for axon and myelin segmentation. Our generalist model makes it easier for researchers to process their data and can be fine-tuned for better performance on specific domains. We study the benefits of different aggregation schemes. This multi-domain segmentation model performs better than single-modality dedicated learners (p=0.03077), generalizes better on out-of-distribution data and is easier to use and maintain. Importantly, we package the segmentation tool into a well-maintained open-source software ecosystem (see https://github.com/axondeepseg/axondeepseg).
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