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. 2020 Jul 2;8:375. doi: 10.3389/fcell.2020.00375

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Copyright © 2020 van der Hee, Madsen, Vervoort, Smidt and Wells.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Differential gene- and pathway expression in organoids shows stable transcription over time. The two separate organoid cultures (n = 3 per group) were tested for expression differences between 3 and 12 weeks of culturing, (A) showing representative correlations over time within an organoid line and between different animals (n = 13813 genes with at least 1 sample >1 FPKM). Significant (p < 0.05) up- (B) and down-regulation (C) of genes and their corresponding overlapping pathways when tested individually using TOPPfun (overlapping area shows similar genes between organoid types, BP, Biological processes; CC, Cellular component; PW, Pathway). (D) Overlapping up- and down-regulated genes between 3 and 12 weeks of culturing in actual expression values [Log(FPKM)] and their corresponding fold change [Log2(FC)].