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. 2017 Nov;27(11):1830–1842. doi: 10.1101/gr.222794.117

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© 2017 Bhattacharyya et al.; Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 4. — 5-hmC obtained from OXBS correlates with regions of open chromatin and gene expression. (A) Density plot shows percentage of 5-hmC and 5-mC in CpGs in pancreatic cancer cells. (B) Colocalization of 5-hmC/5-mC with ATAC-seq peaks shows 5-hmC is enriched at areas of open chromatin when compared to 5-mC (P < 0.0001, permutation test on differences in kurtosis). (C) Heatmap shows colocalization of 5-hmC with ATAC-seq peaks. (D,E) Colocalization of 5-hmC loci with RNA-seq shows higher 5-hmC and lower 5-mC at promoters with expressed transcripts. (F) Example of highly expressed VEGFA oncogene, shows similar amounts of 5-mC, but higher amounts of 5-hmC in pancreatic cancer cells when compared to controls.