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. 2019 Apr 3;10:1522. doi: 10.1038/s41467-019-09320-9

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© The Author(s) 2019

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. 6 — Gene expression and looping in E2-induced TDRCs and TRACs. a The number of DDEGs located in each of six types of TDRCs. b A plot of gene expression values along five time points in each of six types of TDRCs. Each green line represents one gene, and blue line represents the average gene expression value. σ² is the variance of log₂ values of gene expression. c The enrichment of KEGG pathways of 1396 genes in MDC/HDCs. d The heatmap of DEGs of TamR vs. MCF7 in each of six types of TRACs. e The number of loops defined by HOMER. Putative: putative loops identified by HOMER. Promoter: one locus of putative loops within −5 K/+1 K of TSS. Enhancer: one locus of putative loops within −5 K/+1 K of TSS and the other with either H3K27ac/H3K4me1 peaks. ERα: at least one locus of loops with an ERα peak and promoter−enhancer. Gene: genes associated with ERα-PE loops showing differentially expressed at TA-MDCs and TA-HDCs. f The enrichment of KEGG pathways of 396 genes associated with 599 ERα-PE loops. TDRC temporally dynamic re-compartmentalization, TRAC tamoxifen-resistant altered compartment, DDEG dynamic differentially expressed genes, KEGG Kyoto Encyclopedia of Genes and Genomes, MDC moderately dynamic compartments, HDC highly dynamic compartments