Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2019 Jun;29(6):969–977. doi: 10.1101/gr.245399.118

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© 2019 Spektor 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/.

PMC Copyright notice

Figure 3. — Accessibility and methylation at peaks. (A,B) Significantly changed mATAC-seq hyperaccessible (log₂ fold change > 1, q < 0.01, n = 23,310 peaks), hypoaccessible (log₂ fold change < −1, q < 0.01, n = 3166 peaks), and unchanged peaks (| log₂ fold change | < 1, q > 0.8 n = 16,170). Motifs enriched in hyperaccessible (C) and hypoaccessible (D) sites compared to unchanged sites. (E) DNA methylation changes at promoters binned by accessibility, reported as the change in methylation ratio of DKO cells relative to HCT116 (DKO/HCT116). (F) mRNA expression changes in DKO cells relative to HCT116, reported as log₂ CPM, at genes binned by differential accessibility of their promoters as in E. Q-values are for Wilcoxon tests with Benjamini–Hochberg correction (Benjamini and Hochberg 1995).