MDCK fluorescence microscopy dataset

Summary This dataset contains multi-channel fluorescence images of MDCK epithelial cells acquired on a Nikon ECLIPSE Ti2 inverted microscope using a Nikon CFI Plan Apo 60x 1.4 NA oil immersion objective. The release includes raw Nikon ND2 files and the processed ground-truth training patches used in our end-to-end learning pipeline. Preview image: For quick visualization. Should not be used for quantitative analysis. For analysis, use the raw ND2 files and the processed patches. Biological sample and labels Sample: MDCK epithelial cellsFluorescence channels and mapping: C0: DAPI C1: F actin C2: Vimentin C3: Lamin A Microscope and acquisition settings System: Nikon Ti2 (ECLIPSE Ti2 inverted microscope)Objective: Nikon CFI Plan Apo 60x 1.4 NA oil immersion, working distance 0.13 mmPixel size: 0.11 µmIllumination: 100 percent LED intensity, pE 4000 (CoolLED) Excitation and emission filters: 385 nm excitation, emission 421 to 445 nm 470 nm excitation, emission 503 to 538 nm 550 nm excitation, emission 582 to 619 nm 635 nm excitation, emission 660 to 701 nm Data contents Raw data: Nikon ND2 files as acquired.Processed data: ground truth patches sized 512 by 512 pixels with 4 channels, prepared for training. How to use Open ND2 files using Nikon NIS Elements, Bio Formats, Fiji, or Python readers that support ND2 via Bio Formats. Training patches can be loaded directly in Python as provided in the zip. Sample preparation See Section 4.4 “Sample preparation” in the associated manuscript for full staining and preparation details. Acknowledgement The authors thank Sanni Erämies regarding her contribution to imaging of MDCK samples, and acknowledge the Biocenter Finland (BF) and Tampere Imaging Facility (TIF) for the service.数据集概述 本数据集包含在尼康（Nikon）ECLIPSE Ti2倒置显微镜下，采用尼康CFI Plan Apo 60× 1.4 NA油浸物镜采集的MDCK上皮细胞多通道荧光图像。本次发布包含原始尼康ND2格式文件，以及用于本研究端到端学习流水线的经处理的真实标签（ground-truth）训练块。 预览图像 预览图像仅用于快速可视化展示，不得用于定量分析。若需开展分析，请使用原始ND2文件与经处理的图像块。 生物样本与标签 样本：MDCK上皮细胞 荧光通道与映射： C0：DAPI C1：F肌动蛋白（F actin） C2：波形蛋白（Vimentin） C3：核纤层蛋白A（Lamin A） 显微镜与采集设置 系统：尼康Ti2（ECLIPSE Ti2倒置显微镜） 物镜：尼康CFI Plan Apo 60× 1.4 NA油浸物镜，工作距离0.13 mm 像素尺寸：0.11 µm 照明设置：LED强度为100%，采用pE 4000（CoolLED公司产品） 激发与发射滤光片 激发波长385 nm，发射波长421~445 nm 激发波长470 nm，发射波长503~538 nm 激发波长550 nm，发射波长582~619 nm 激发波长635 nm，发射波长660~701 nm 数据内容 原始数据：采集得到的尼康ND2格式文件。 经处理数据：用于训练的4通道、尺寸为512×512像素的真实标签图像块。 使用方法 可通过尼康NIS Elements、Bio Formats、Fiji，或支持通过Bio Formats读取ND2文件的Python工具打开ND2格式文件。训练图像块可直接在Python环境中加载，该数据已打包为压缩包提供。 样本制备 完整的染色与样本制备细节，请参阅相关论文的第4.4节"样本制备"。 致谢 作者感谢桑妮·埃拉米耶斯（Sanni Erämies）为MDCK样本成像提供的技术贡献，并感谢芬兰生物中心（Biocenter Finland, BF）与坦佩雷成像设施（Tampere Imaging Facility, TIF）提供的实验服务。