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. 2016 Feb 16;9:7. doi: 10.1186/s13072-016-0055-7

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© Liu et al. 2016

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. 3 — ERβ-dependent transcription of differentially methylated genes in MEFs and ESCs. a Venn diagram visualising overlaps between differentially methylated (identified by RRBS) and differentially expressed (identified by microarray expression analysis) genes in wt and βerko cells. b Gene expression analysis of hypomethylated (Dyx1c1, HoxD9), hypermethylated complementable (HoxA9, HoxA10, and Tnfaip2), and hypermethylated non-complementable genes in wt, βerko, and βerkohERβ MEFs. Gene expression was analysed by RT-qPCR (mean + SD; n ≥ 3). c DNA methylation of differentially methylated genes in wt MEFs and ESCs, assessed by methylation-specific enzymatic digest followed by qPCR. d ERβ-dependent expression of differentially methylated genes in ESCs. Gene expression was assessed by qRT-PCR 4 days after transfection with plasmid encoding for shRNA against ERβ or non-targeting control (means + SD; n ≥ 3). All the genes showed significantly decreased expression compared to shcontrol (** p < 0.01, *** p < 0.005). e ERβ-dependent expression of differentially methylated genes in wt and berko ESCs and NPCs derived thereof. Gene expression was assessed by qRT-PCR (means + SD; n ≥ 3; * p < 0.05, *** p < 0.005)