Tumour-stroma_spheroid_multicultures_features

ARTICLE (when using these files, please, cite the following article):Akos Diosdi, Filippo Piccinini, Timea Boroczky, Gabriella Dobra, Gastone Castellani, Krisztina Buzas, Peter Horvath, Maria Harmati. "Single-cell light-sheet fluorescence 3D images of tumour-stroma spheroid multicultures". (2024)DESCRIPTION OF THE FILES:The dataset contains 90 multi-tiff fluorescence images of control and drug-treated multiculture 3D tumour models taken 24, 48, and 96 hours after seeding. Each spheroid model includes one tumour cell line (either T-47D ductal carcinoma, A375 melanoma, or MG-63 osteosarcoma) and two stromal cell lines, <i>i.e.</i> MRC-5 fibroblasts, and EA.hy926 endothelial cells (ATCC, Manassas, Virginia, USA). Before seeding, each cell line was stained differently with CellTracker dyes based on the manufacturer’s instructions (Invitrogen, Thermo Fisher Scientific), precisely MRC-5 - Deep Red, EA.hy926 - Green CMFDA, and tumour cell lines - Orange CMTMR dyes. Additionally, each tumour model was stained with Hoechst 33342 in DMEM for 60 min before imaging. Overall, 4 channels were acquired: Nuclei - 405 (ch001), EA.hy926 - 488 (ch002), tumour - 552 (ch003), and MRC-5 - 638 (ch004) with the Leica True Confocal Scanning (TCS) SP8 Digital LightSheet (DLS) microscope. The multi-page 16-bit Tiff files have a resolution of 2048 × 2048, with pixel size 0.14370117 µm, and the distance between each image in each z-stack is 3.7 µm. Additionally, Maximum Intensity Projection (MIP) images were generated and morphological features were extracted from every spheroid in the collection using a software tool known as AnaSP. The extracted features of the 90 spheroids are included.FILE NAMES:All the files in this collection follow this terminology:<br>“TumourType_+*_TimePoint_SpheroidID_channelID.tif”*If treatment was applied.MODELS:A: T-47D<br>A+: T-47D treated with 0.6 µM doxorubicin<br>B: A375<br>B+: A375 treated with 0.6 µM doxorubicin<br>C: MG-63<br>C+: MG-63 treated with 0.6 µM doxorubicin<br>TIME POINTS:24h<br>48h<br>96h<br>For each tumour cell line and time point, five spheroids have been imaged under both drug-treated and control conditions.MAXIMUM INTENSITY PROJECTION IMAGES:Maximum Intensity Projection (MIP) images were created by combining all the z-stack images of spheroids. Channels were separated and the merged images for three channels (merge1: 488, 552, and 638) and four channels (merge_all: 405, 488, 552, and 638) were included in the collection.IMAGE ANALYSIS:Using a software called AnaSP, morphological features have been extracted from each spheroid reported in the collection. A table containing the extracted features of the 90 spheroids is included.<br><br>Features_all.xls<br>Features_pixel.csv<br>Features_um.csv<br>MAIN CONTACTS:Maria Harmati, Synthetic and Systems Biology Unit, HUN-REN Biological Research Centre (HUN-REN BRC), 6726 Szeged, Hungary<br>Email: [e-mail]<br>COPYRIGHT:* Copyright (c) 2024, Akos Diosdi, Peter Horvath, Maria Harmati,* HUN-REN Biological Research Centre (HUN-REN BRC) HUN-REN, Szeged, Hungary* All rights reserved.** Redistribution and use of the material, with or without modification, is provided for academic research purposes only.** This material is free; you can redistribute it and/or modify it under the terms of the CC BY 4.0.**引用说明（使用本数据集文件时，请引用以下文献）**：Akos Diosdi、Filippo Piccinini、Timea Boroczky、Gabriella Dobra、Gastone Castellani、Krisztina Buzas、Peter Horvath、Maria Harmati，《肿瘤-基质球体共培养物的单细胞光片荧光三维图像（single-cell light-sheet fluorescence 3D images）》，2024年。 ## 数据集文件说明 本数据集包含90幅多TIFF荧光图像，对应接种后24、48及96小时的对照组与药物处理组三维肿瘤共培养模型。每一类球体模型均包含1种肿瘤细胞系（T-47D导管癌细胞、A375黑色素瘤细胞或MG-63骨肉瘤细胞）与2种基质细胞系，即MRC-5成纤维细胞与EA.hy926内皮细胞（美国典型培养物保藏中心，ATCC，美国弗吉尼亚州马纳萨斯市）。 接种前，各细胞系依据制造商操作指南（Invitrogen，赛默飞世尔科技，Thermo Fisher Scientific）使用不同的CellTracker染料（CellTracker dyes）进行染色：MRC-5细胞使用深红色染料，EA.hy926细胞使用绿色CMFDA染料，肿瘤细胞系使用橙色CMTMR染料。此外，所有肿瘤模型在成像前均用添加于杜尔贝科改良伊格尔培养基（DMEM）的Hoechst 33342染色60分钟。 最终通过徕卡True Confocal Scanning（TCS）SP8数字光片（DLS）显微镜采集4个通道的图像：细胞核通道（405 nm，ch001）、EA.hy926细胞通道（488 nm，ch002）、肿瘤细胞通道（552 nm，ch003）与MRC-5细胞通道（638 nm，ch004）。 本数据集的多页16位TIFF文件分辨率为2048×2048，像素尺寸为0.14370117 µm，各z-stack层间间距为3.7 µm。此外，本数据集还包含通过最大强度投影（Maximum Intensity Projection, MIP）生成的图像，并使用AnaSP软件（AnaSP）从所有球体样本中提取了形态学特征，90个球体的提取特征已一并收录。 ## 文件命名规则 本数据集所有文件均遵循以下命名格式： `TumourType_+*_TimePoint_SpheroidID_channelID.tif` *注：仅当施加药物处理时添加`+`符号。 ## 样本模型分类 - A：T-47D细胞（未处理组） - A+：经0.6 µM多柔比星处理的T-47D细胞 - B：A375细胞（未处理组） - B+：经0.6 µM多柔比星处理的A375细胞 - C：MG-63细胞（未处理组） - C+：经0.6 µM多柔比星处理的MG-63细胞 ## 采样时间点 24h、48h、96h 针对每一种肿瘤细胞系与时间点，分别在药物处理组与对照组中各成像5个球体样本。 ## 最大强度投影图像 最大强度投影（Maximum Intensity Projection, MIP）图像通过整合球体的所有z-stack图像生成。本数据集已分离各通道图像，并收录了三通道合并图像（merge1：488 nm、552 nm与638 nm通道）与全四通道合并图像（merge_all：405 nm、488 nm、552 nm与638 nm通道）。 ## 图像分析 使用AnaSP软件（AnaSP）从本数据集收录的每个球体样本中提取形态学特征，包含90个球体特征的表格文件如下： - Features_all.xls - Features_pixel.csv - Features_um.csv ## 主要联系人 Maria Harmati，匈牙利HUN-REN生物研究中心（HUN-REN Biological Research Centre, HUN-REN BRC）合成与系统生物学研究室，匈牙利塞格德市6726 邮箱：[e-mail] ## 版权声明 * 版权所有 © 2024 Akos Diosdi、Peter Horvath、Maria Harmati，匈牙利HUN-REN生物研究中心（HUN-REN BRC），匈牙利塞格德市 * 保留所有权利。 * 本材料的再分发与使用（无论是否修改）仅可用于学术研究目的。 * 本材料免费开放，您可依据CC BY 4.0（知识共享署名4.0国际许可协议）协议进行再分发与修改。