Example Microscopy Metadata JSON files produced using Micro-Meta App to document the acquisition of example images using a custom-built TIRF Epifluorescence Structured Illumination Microscope

Example Microscopy Metadata JSON files produced using the Micro-Meta App documenting an example raw-image file acquired using the custom-built TIRF Epifluorescence Structured Illumination Microscope. For this use case, which is presented in Figure 5 of Rigano et al., 2021, Micro-Meta App was utilized to document: 1) The Hardware Specifications of the custom build TIRF Epifluorescence Structured light Microscope (TESM; Navaroli et al., 2010) developed, built on the basis of the based on Olympus IX71 microscope stand, and owned by the Biomedical Imaging Group (http://big.umassmed.edu/) at the Program in Molecular Medicine of the University of Massachusetts Medical School. Because TESM was custom-built the most appropriate documentation level is Tier 3 (Manufacturing/Technical Development/Full Documentation) as specified by the 4DN-BINA-OME Microscopy Metadata model (Hammer et al., 2021). The TESM Hardware Specifications are stored in: Rigano et al._Figure 5_UseCase_Biomedical Imaging Group_TESM.JSON 2) The Image Acquisition Settings that were applied to the TESM microscope for the acquisition of an example image (FSWT-6hVirus-10minFIX-stk_4-EPI.tif.ome.tif) obtained by Nicholas Vecchietti and Caterina Strambio-De-Castillia. For this image, TZM-bl human cells were infected with HIV-1 retroviral three-part vector (FSWT+PAX2+pMD2.G). Six hours post-infection cells were fixed for 10 min with 1% formaldehyde in PBS, and permeabilized. Cells were stained with mouse anti-p24 primary antibody followed by DyLight488-anti-Mouse secondary antibody, to detect HIV-1 viral Capsid. In addition, cells were counterstained using rabbit anti-Lamin B1 primary antibody followed by DyLight649-anti-Rabbit secondary antibody, to visualize the nuclear envelope and with DAPI to visualize the nuclear chromosomal DNA. The Image Acquisition Settings used to acquire the FSWT-6hVirus-10minFIX-stk_4-EPI.tif.ome.tif image are stored in: Rigano et al._Figure 5_UseCase_AS_fswt-6hvirus-10minfix-stk_4-epi.tif.JSON Instructional video tutorials on how to use these example data files: Use these videos to get started with using Micro-Meta App after downloading the example data files available here. Part 1/2 Part 2/2

本数据集包含由Micro-Meta应用（Micro-Meta App）生成的示例显微镜元数据JSON文件，用于记录由定制化总内反射荧光落射荧光结构照明显微镜采集的示例原始图像文件。本数据集对应Rigano等人2021年发表的图5中的应用场景，Micro-Meta应用用于记录以下内容：
1) 该定制化总内反射荧光落射荧光结构照明显微镜（后文简称TESM；Navaroli等，2010）的硬件参数，该设备基于奥林巴斯IX71显微镜机架开发搭建，归属于马萨诸塞大学医学院分子医学项目下属的生物医学成像组（Biomedical Imaging Group，http://big.umassmed.edu/）所有。由于TESM为定制化设备，按照4DN-BINA-OME显微镜元数据模型（Hammer等，2021）的规定，其最合适的文档层级为三级（制造/技术开发/完整文档）。TESM的硬件参数存储于文件：Rigano等人_图5_应用场景_生物医学成像组_TESM.JSON。
2) 针对由Nicholas Vecchietti与Caterina Strambio-De-Castillia获取的示例图像（FSWT-6hVirus-10minFIX-stk_4-EPI.tif.ome.tif），用于TESM显微镜采集该图像的图像采集参数。该图像的样本制备流程如下：将TZM-bl人源细胞感染人类免疫缺陷病毒1型（HIV-1）三组分逆转录病毒载体（FSWT+PAX2+pMD2.G）；感染6小时后，使用含1%甲醛的磷酸盐缓冲液（PBS）固定细胞10分钟并进行透化处理；使用小鼠抗p24一抗，随后结合DyLight488标记的抗小鼠二抗，以标记检测HIV-1病毒衣壳；此外，使用兔抗Lamin B1一抗，随后结合DyLight649标记的抗兔二抗对核被膜进行染色，同时使用4',6-二脒基-2-苯基吲哚（DAPI）染色以显示细胞核染色体DNA。用于采集该图像的采集参数存储于文件：Rigano等人_图5_应用场景_AS_fswt-6hvirus-10minfix-stk_4-epi.tif.JSON。
配套使用教程视频可指导用户使用本示例数据集：用户可先下载此处提供的示例数据文件，再通过以下两段视频快速上手Micro-Meta应用：第1/2部分、第2/2部分。