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-基质球体多培养体系的单细胞光片荧光三维影像》，2024年。

### 数据集文件说明
本数据集包含90幅多页TIFF格式荧光影像，对应接种后24、48、96小时的对照组及药物处理组三维肿瘤共培养模型。每个球体模型包含1种肿瘤细胞系（分别为T-47D导管癌细胞、A375黑色素瘤细胞或MG-63骨肉瘤细胞）以及2种基质细胞系，即MRC-5成纤维细胞与EA.hy926内皮细胞（源自美国弗吉尼亚州马纳萨斯市ATCC）。

接种前，所有细胞系均按照生产商（美国赛默飞世尔科技Invitrogen）的说明书使用CellTracker染料进行差异化染色：MRC-5细胞标记为Deep Red，EA.hy926细胞标记为Green CMFDA，肿瘤细胞系标记为Orange CMTMR。此外，所有肿瘤模型在成像前均使用DMEM培养基中的Hoechst 33342染色60分钟。本数据集采用徕卡True Confocal Scanning (TCS) SP8数字光片(DLS)显微镜采集，共包含4个成像通道：细胞核通道（405nm，ch001）、EA.hy926细胞通道（488nm，ch002）、肿瘤细胞通道（552nm，ch003）以及MRC-5细胞通道（638nm，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，每层z-stack图像间的间距为3.7 µm。此外，本数据集还生成了最大强度投影（Maximum Intensity Projection, MIP）影像，并通过AnaSP软件从全部90个球体中提取了形态学特征数据，相关特征结果已包含在数据集中。

### 文件名规则
本数据集所有文件均遵循以下命名格式："TumourType_+*_TimePoint_SpheroidID_channelID.tif"，其中「+*」代表施加药物处理的组别。

### 模型分组
A组：T-47D细胞系
A+组：经0.6 µM阿霉素处理的T-47D细胞系
B组：A375细胞系
B+组：经0.6 µM阿霉素处理的A375细胞系
C组：MG-63细胞系
C+组：经0.6 µM阿霉素处理的MG-63细胞系

### 时间节点
本数据集包含24h、48h、96h三个时间节点。针对每种肿瘤细胞系与每个时间节点，对照组及药物处理组均分别成像5个球体样本。

### 最大强度投影影像
最大强度投影（Maximum Intensity Projection, MIP）影像通过整合球体的全部z-stack图像生成。本数据集包含分离后的单通道影像，以及三通道融合影像（merge1：488nm、552nm、638nm）和四通道融合影像（merge_all：405nm、488nm、552nm、638nm）。

### 图像分析
本数据集通过AnaSP软件从全部收录的球体中提取了形态学特征，并包含了90个球体的特征提取结果表格，具体特征文件包括：Features_all.xls、Features_pixel.csv、Features_um.csv。

### 主要联系人
Maria Harmati，匈牙利塞格德市HUN-REN生物研究中心（HUN-REN BRC）合成与系统生物学研究室，邮编6726；电子邮箱：[e-mail]

### 版权声明
© 2024 Akos Diosdi、Peter Horvath、Maria Harmati，匈牙利塞格德市HUN-REN生物研究中心（HUN-REN BRC），保留所有权利。
本材料仅可用于学术研究目的，无论是否经过修改，均可进行再分发与使用。本材料为免费开源资源，您可按照CC BY 4.0协议的条款进行再分发与修改。