High content screening reveals the phenotypic landscape of intestinal organoid regeneration

Supported by:

23 March 2021


Supported by:

23 March 2021

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Image-based phenotypic screening relies on extraction of multivariate information from cells cultured in a large number of screened conditions. In this webinar, we explored the application of complex and biologically relevant model systems for drug screening, such as small intestinal organoids.

We described several processes used to infer regulatory genetic interactions and identify genes that regulate cell-fate transitions and maintain the balance between regeneration and homeostasis, unravelling previously unknown roles for several pathways, among them retinoic acid signalling.

We then characterised a crucial role for retinoic acid nuclear receptors in controlling exit from the regenerative state and driving enterocyte differentiation.

Finally, by combining quantitative imaging with RNA sequencing, we showed the role of endogenous retinoic acid metabolism in initiating transcriptional programmes that guide the cell-fate transitions of intestinal epithelium and identify an inhibitor of the retinoid X receptor that improves intestinal regeneration in vivo.

Learning outcomes of this webinar:

  • Learn how to upscale, streamline and automate intestinal organoid handling
  • Learn how to image in complex three-dimensional (3D) model systems and how to approach big imaging datasets
  • Understand the basics of multivariate analysis on image-inferred features
  • Ask our expert speaker questions and benefit from their knowledge and guidance.


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    Ilya Lukonin, PhD, High Content Screening and Automation expert, Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland

    Yokogawa SpeakerIlya was born and grew up in Tallinn, Estonia. He received his Bachelor and Master degrees in Biochemistry from the Freie Universität Berlin (Germany).  Driven by his interest for imaging and multivariate data analysis, he joined the lab of Prisca Liberali at the Friedrich Miescher Institute in Basel, Switzerland for a PhD project where he investigated the molecular mechanisms that underlie the development of intestinal organoids by means of high content screening. Currently he is responsible for supporting HCS projects at the institute and developing novel workflows for automated culture and imaging of complicated 3D model systems.

    One response to “High content screening reveals the phenotypic landscape of intestinal organoid regeneration”

    1. Jiaxin Wang says:

      It is very seminal and instrumental.

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