Data underlying the PhD thesis: Shedding light on dynamic processes in the intestinal epithelium

This dataset contains data underlying the PhD dissertation of Willem Kasper Spoelstra, under supervision of (promotor) Prof. Dr. Ir. Sander J. Tans, Dr. Jeroen van Zon and (promotor) Prof. Dr. Pieter Rein ten Wolde. In this project, live-cell imaging and single-cell tracking was used to study several complex dynamic processes in intestinal organoids. These processes include cell extrusion (Chapter 2), onset of differentiation (Chapter 3), differentiation and function of rare human BEST4/CA7 cells (Chapter 4). Additionally, two additional chapters describe a new way to predict cell nuclei and membranes in organoids from brightfield images (Chapter 5), and protocols for doing long-term quantitative microscopy on intestinal organoids (Chapter 6). Tracking analyses were performed using a custom-built software (OrganoidTracker). This dataset contains .csv files necessary to replot the graphs in (co-)first author chapters (2, 4 and 6). Data for the other chapters (3 and 5) is available as per the data availability statement in the respective publications. The DOIs of these publications are included.

本数据集包含Willem Kasper Spoelstra博士学位论文的支撑数据，该研究由Prof. Dr. Ir. Sander J. Tans、Prof. Dr. Pieter Rein ten Wolde两位论文答辩主席（promotor）以及Jeroen van Zon博士共同指导完成。本项目借助活细胞成像与单细胞追踪技术，对肠道类器官中的多项复杂动态过程展开研究，涵盖细胞挤出（第2章）、分化起始（第3章）以及罕见人类BEST4/CA7阳性细胞的分化与功能特性（第4章）。此外，另有两章分别介绍了一种从明场图像中预测类器官细胞核与细胞膜的新方法（第5章），以及针对肠道类器官的长期定量显微镜实验方案（第6章）。本研究的追踪分析均基于自研软件OrganoidTracker完成。本数据集包含用于重新绘制共同第一作者相关章节（第2、4、6章）中图表所需的.csv格式文件。其余章节（第3、5章）的相关数据可参照对应出版物中的数据可用性声明获取，上述出版物的数字对象标识符（DOI）已随本数据集一并提供。