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

. 2017 Mar 20;8:14758. doi: 10.1038/ncomms14758

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

Copyright © 2017, The Author(s)

This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article's Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/

PMC Copyright notice

(a) Volcano plots depict gene expression changes (P<0.05) between CGNs treated with ICRF-193 or DMSO (left panel) and between WT [Chd7^f/f] and Chd7 homozygous mutant [Atoh1-Cre::Chd7^f/f] CGNs (right panel). Genes longer than 100 kb are labelled as red dots. The grey lines show the position of fold change of 1.5. (b) Gene Set Enrichment Analysis (GSEA) of genes that were significantly downregulated (P<0.01) in CGNs upon ICRF-193 treatment in WT and Chd7 mutant CGNs (left panel) and were significantly downregulated in Chd7 mutant CGNs (P<0.01) in ICRF-193- and DMSO-treated WT CGNs (right panel). P<0.001. NES: Normalized Enrichment Score. (c) Heatmap of the expression of genes activated by both Chd7 and Top2b in WT and Chd7 mutant CGNs, and ICRF-193- or DMSO-treated CGNs and cells cultured with (GNPs) or without SAG (CGNs). The colour scale is shown on the right. (d) qRT–PCR analysis represented Top2b-activated genes in CGNs. The level of Gapdh transcripts was used for normalization. Bars represent normalized mean value ± s.d. from four samples for each group. P=0.0003; 0.001; 0.0035; 0.005; 0.0006; 1.0E-5 (from left to right). (e) qRT–PCR analysis of the represented genes in Chd7 WT and mutant CGNs. The level of Gapdh transcripts was used for normalization. Bars represent normalized mean value ± s.d. from four samples for each group. P=0.001; 1.8E-5; 0.0004; 0.028; 0.035; 0.0016 (from left to right). (f) ChIP-seq density heatmaps for Chd7 in GNPs and Top2b in CGNs within ±2 kb of the Chd7 peak centre. (g) ChIP-seq density heatmaps depict altered Top2b ChIP-seq peaks (P<0.01, fold change>2) between WT and Chd7 mutant CGNs. Regions within ±2 kb of the Top2b peak centre are shown. (h) Track view of ChIP-seq density profile for Chd7 in GNPs and Top2b in WT and Chd7 mutant CGNs in the region upstream of Cadps2 gene. (i) GSEA of selected genes that have at least one decreased Top2b ChIP-seq peak in Chd7-deficient CGNs in ICRF-193- and DMSO-treated WT CGNs. P<0.001.