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. 2018 Feb 8;9(2):200. doi: 10.1038/s41419-017-0173-6

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as 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 images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — a Venn diagram showing the ATAC-seq peak overlaps between the control and ATRA-treated HL-60 cells. b Pie chart showing the annotation of the overlapping and specific ATAC-seq peaks. Proportion of promoter peaks is significantly lower in the specific peaks than that in the overlapping peaks. c Accumulation bar-plot showing the enrichment of ATAC-seq peaks in regulatory regions of Gain or Loss interactions. p-Value was determined by Fisher exact test: **p-value < 1e−10, ***p-value < 1e−22. d Similar to Fig. 4c showing enrichment in gene regions. e Homer de novo motif analysis of specific ATAC-seq peaks. Motifs are ordered by significance in the control-specific peaks from top to bottom. GATA motif was only significantly enriched in the control-specific peaks. f Core transcription regulation network of the ATRA-induced differentiation process. Shapes of nodes represent their biological function, including cell cycle (ellipse), apoptosis (diamond), signaling (rectangle), and differentiation (hexagon). Colors of nodes represent expression changes upon ATRA induction, including upregulation (red), downregulation (green), and unchanged (white)