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. 2020 Sep 7;21:240. doi: 10.1186/s13059-020-02139-4

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© The Author(s) 2020

Open AccessThis 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/. 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 in a credit line to the data.

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Fig. 2 — COCOA identifies sources of DNA methylation regulatory variation. a The COCOA score for each region set, ordered from highest to lowest. The ER-related group includes GATA3, FOXA1, and H3R17me2. The polycomb group includes EZH2 and SUZ12. b The association of PC scores with ER status for PCs 1–4 based on a Wilcoxon rank-sum test. c Meta-region profiles of several of the highest scoring region sets from PC1 (GATA3, ER, H3R17me2) and two polycomb group proteins (EZH2, SUZ12). Meta-region profiles show covariance between PC scores and the epigenetic signal in regions of the region set, centered on the regions of interest. A peak in the center indicates that DNA methylation in those regions covaries with the PC specifically around the sites of interest. The number of regions from each region set that were covered by the epigenetic data in the COCOA analysis (panel a) is indicated by “n”