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

DOI:10.4121/40e531f5-30ed-43a8-a6cc-95361315cd21.v1
The DOI displayed above is for this specific version of this dataset, which is currently the latest. Newer versions may be published in the future. For a link that will always point to the latest version, please use
DOI: 10.4121/40e531f5-30ed-43a8-a6cc-95361315cd21

Datacite citation style

Spoelstra, Willem Kasper (2025): Data underlying the PhD thesis: Shedding light on dynamic processes in the intestinal epithelium. Version 1. 4TU.ResearchData. dataset. https://doi.org/10.4121/40e531f5-30ed-43a8-a6cc-95361315cd21.v1
Other citation styles (APA, Harvard, MLA, Vancouver, Chicago, IEEE) available at Datacite

Dataset

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.

History

  • 2025-06-27 first online, published, posted

Publisher

4TU.ResearchData

Format

Data to generate plots are attached as .csv files.

Funding

  • Organoids in Time (grant code 2019.085) [more info...] Nederlandse Organisatie voor Wetenschappelijk Onderzoek

Organizations

AMOLF, Amsterdam
TU Delft, Faculty of Applied Sciences, Department of Bionanoscience

DATA - under embargo

The files in this dataset are under embargo until 2026-12-31.

Reason

As of the submission of the thesis, the majority of the data is still unpublished and is therefore kept under embargo. Upon acceptance of the chapters for publication, the data will be made (publicly) available following the requirements of the respective journal and the AMOLF Data Management policy.