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. 2019 Aug 16;17:68. doi: 10.1186/s12915-019-0687-8

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© The Author(s). 2019

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 6 — Comparisons of differentially expressed genes (DEGs) and alterations of chromatin states in REPC, rumen tissues, and MDBK. a Overlaps of upregulated DEGs post butyrate treatment in REPC with genes gaining at least one of three active epigenomic marks (H3K9ac, H3K27ac, and RNA pol II) after butyrate treatment or weaning in rumen tissues or after butyrate treatment in MDBK, respectively. b Comparison of expression for 729 upregulated DEGs also gaining active epigenomic marks in MDBK before and after butyrate treatment. c Changes of individual epigenomic marks of ARC gene before and after butyrate treatment in REPC, shown as an example of upregulated DEGs that have the chromatin state transition from BivFlnk to active promoter/transcript (highlighted region). The bars are read-counts of the input epigenomic sequence within each 200-bp window. d Overlaps of downregulated DEGs post butyrate treatment in REPC with genes losing at least one of three active epigenomic marks (H3K9ac, H3K27ac, and RNA pol II) after butyrate treatment or weaning in rumen tissues or after butyrate treatment in MDBK, respectively. e Comparison of expression for 302 downregulated DEGs also losing active epigenomic marks in MDBK before and after butyrate treatment. f Changes of individual epigenomic marks of MAD2L1 gene before and after butyrate treatment in REPC, shown as an example of downregulated DEGs exhibiting the chromatin state transition from TssAFlnk to quiescence (Quies) (highlighted regions)