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. 2021 Jul 7;10(7):1718. doi: 10.3390/cells10071718

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© 2021 by the authors.

Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).

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Epigenetic changes in the bivalent genes of clusters e and f: (A) Cluster e comprises 342 genes in state (11) in all the tissue samples that lose H3K4me3 in all the organoid samples (01). (B) Cluster f comprises 147 genes in state (11) in all the tissue samples that lose H3K27me3 in all the organoid samples (10). (C,D) Modification states in isolated ISCs and aECs based on the published data [27]. (C) Close to 100% of cluster e genes show the same modification state as in the organoids. (D) In contrast, about 60% of cluster f genes show the modification state seen in the tissue samples. (E,F) Box plots of the RNA-seq data of all spot genes in the 3 tissue and 3 short-term organoid samples. (E) Cluster e genes that lose H3K4me3 are, as expected, transcriptionally repressed. (F) The transcription of cluster f genes is unchanged; *** p-value < 0.001 (t-test).