On the risk of manual annotations in 3D confocal microscopy image segmentation

This dataset contains different annotated masks of human induced pluripotent stem cell nuclei from the dataset published with https://doi.org/10.1038/s41586-022-05563-7 and DL models trained using these masks. Napari-GT and Slicer-GT were manually annotated using the Napari and 3D Slicer software considering only the DNA channel, while for bioGT the Lamin B1 channel was annotated using the seeded watershed algorithm to obtain a reproducible and biologically plausible nucleus annotation. This dataset is provided to reproduce the results in the manuscript "On the risk of manual annotations in 3D confocal microscopy image segmentation", more details can be found there.本数据集包含来自https://doi.org/10.1038/s41586-022-05563-7 所发布数据集的多组人类诱导多能干细胞（human induced pluripotent stem cell）细胞核标注掩码，以及基于这些掩码训练得到的深度学习（Deep Learning, DL）模型。其中Napari-GT与Slicer-GT仅针对DNA通道，分别使用Napari软件与3D Slicer软件完成手动标注；而bioGT则通过种子分水岭算法（seeded watershed algorithm）对核纤层蛋白B1（Lamin B1）通道进行标注，以获取可复现且符合生物学合理性的细胞核标注结果。本数据集旨在复现研究论文《3D共聚焦显微镜图像分割中的手动标注风险》(On the risk of manual annotations in 3D confocal microscopy image segmentation)中的相关结果，更多细节可查阅该文献。