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. 2018 Nov 22;13(10-11):1088–1105. doi: 10.1080/15592294.2018.1543504

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© 2018 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 2. — Differentially methylated regions (DMRs) in precursor lesions and proto-CIMP in SSA/Ps. a. Volcano plots showing the median differential methylation (x-axis) and its statistical significance (y-axis) for DMRs found in SSA/Ps and cADNs. (See Figure 1B legend for cutoffs and color codes) b. UpSet plots showing the lesion-specificity of hypermethylated and hypomethylated DMRs found in precancerous tumors. Exact numbers of lesion-specific (•) and shared (•-•) DMRs appear above the bars. c. Genomic location of DMRs in SSA/Ps vs cADNs. d. Scatterplots showing the extent of methylation at regions hypermethylated in both SSA/Ps and cADNs, and located within CpG islands (dots in the left panel) or 4-kb peri-TSS windows, i.e., TSS plus 2000-bp upstream and downstream flanking regions (dots in the right panel). In addition, CpG islands or peri-TSS windows with at least one hypermethylated CpG in either SSA/Ps or cADNs are included in the two graphics (i.e., dots along the y or x axis, respectively). e. Venn diagrams showing overlap between sets of genes in SSA/Ps and cADNs whose peri-TSS window contained at least one hypermethylated DMR.