首个兼顾结构与全脑尺度的神经元重建基准,提升重建准确性。
CORAL: A Benchmark for Structure-aware and Brain-wide Neuron Reconstruction in Light Microscopy

- 构建全脑尺度神经元重建基准,分局部与整体两阶段评估。
- 提出基于纤维预测的结构感知度量,更关注拓扑正确性。
- 开发迭代式全局追踪框架,使局部方法可扩展至全脑。
从光显微图像自动重建神经元是计算神经解剖学的核心问题。尽管近期方法在局部图像块上取得良好结果,但其能否实现结构准确且可扩展至全脑的重建仍不明确。我们提出CORAL,首个针对光显微图像中结构感知、跨局部与全脑尺度的神经元自动重建评估基准。基于高质量全脑fMOST数据集并经精心标注,CORAL设立两项渐进任务:块级重建(评估有限空间上下文下的方法)与全脑重建(评估整个大脑范围内的完整神经元重建)。为超越几何距离相似性的评价标准,引入基于纤维预测的结构感知度量。为进一步实现全脑完整神经元重建,我们开发了一种全脑神经元追踪框架,通过迭代式局部到全局过程,将任意局部重建方法拓展至全脑尺度。利用该基准,我们首次对主流局部神经元重建方法进行结构感知比较,并进一步评估其在全脑重建中的表现。结果强调了结构感知评估的重要性,以及发展更鲁棒的完整神经元重建方法的迫切需求。
原文摘要 · Abstract (English)
Automatic neuron reconstruction from light microscopy images is a central problem in computational neuroanatomy. While recent methods have achieved encouraging results on local image blocks, it remains unclear whether such progress translates to reconstruction that is both structurally accurate and scalable to the whole-brain scale. We present CORAL, the first benchmark for structure-aware evaluation of automatic neuron reconstruction from light microscopy images at both local and whole-brain scales. Built on a high-quality whole-brain fMOST dataset with carefully curated annotations, CORAL establishes two progressive tasks: block-level reconstruction, which evaluates reconstruction methods under limited spatial context, and brain-wide reconstruction, which assesses complete neuron reconstruction at the whole-brain scale. To account for topological correctness beyond geometric distance similarity, we introduce a structure-aware metric based on fiber prediction. To further achieve complete neuron reconstruction across the entire brain, we develop a brain-wide neuron tracing framework that extends arbitrary local reconstruction methods to the whole-brain scale through an iterative local-to-global process. Using this benchmark, we provide the first structure-aware comparison of mainstream methods for local neuron reconstruction and further evaluate their performance in brain-wide reconstruction. Our results underscore the importance of structure-aware evaluation and the need for more robust methods for complete neuron reconstruction.
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