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. 2019 Dec 16;15(4):398–418. doi: 10.1080/15592294.2019.1695332

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© 2019 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivatives License (http://creativecommons.org/licenses/by-nc-nd/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited, and is not altered, transformed, or built upon in any way.

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Figure 3. — 5hmC is enriched among genomic regions associated with transcriptional regulation. Forest plots show enrichment of high 5hmC CpGs, as determined across 18 normal breast tissue samples, among (a) CpG island regions (CpG islands, shores, shelves, and open sea regions), (b) transcriptional features (promoters, introns, exons, or intergenic regions), (c) ChromHMM states in breast myoepithelial cells (E027), and (d) ChromHMM states in human mammary epithelial cells (HMECs, E119). Enrichment was determined using Fisher’s exact tests (in a) or Cochran-Mantel-Haenszel tests (in b–d) to calculate odds ratios (ORs) and 95% confidence intervals (95% CIs), with the 450K background set of CpGs used as the background, while controlling for CpG island context (islands, shores, shelves, open seas). Numerical values for odds ratios and P-values are provided in tables adjacent to each forest plot.