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Series GSE166098 Query DataSets for GSE166098
Status Public on May 08, 2024
Title HMGN5, an RNA and Nucleosome binding protein required for chromatin de-condensation and gene activation [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary HMGN5 is a member of the HMGN family that de-compacts chromatin and regulates gene expression. Chromatin-associated RNAs are known to play a major role in controlling gene expression and chromatin architecture. We recently showed that RNA is required to open chromatin structure in Drosophila. A potential involvement of RNA in the HMGN5-dependent opening of chromatin has not been studied so far. Here we revealed that HMGN5 has a novel and specific RNA binding activity, which is extended to the HMGN family. HMGN5 is associated preferentially with active regulatory regions and binds co-transcriptionally to the nascent RNA. Additionally, we showed that HMGN5 co-localizes and interacts with CTCF, which suggests a cooperative role of both proteins in organizing higher order structures of chromatin. We showed that HMGN5 forms mutually exclusive complexes with chromatin and RNA in vitro, altogether suggesting a dual role for HMGN5 in gene regulation, switching from nucleosome to RNA binding during gene activation.
 
Overall design This serie includes ChIP-seq data from HMGN5-GFP cells with or without induction, and the GFP-FlpIn induced cells as control
Web link https://www.biorxiv.org/content/10.1101/2022.07.15.500188v1
 
Contributor(s) Araya I, Nardocci G, Carrasco I, Schwartz U, Imhof A, Montecino M, Längst G
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Feb 03, 2021
Last update date May 08, 2024
Contact name Gino Nardocci
E-mail(s) gnardo@gmail.com
Organization name Universidad de los Andes
Street address Av. Mons. Álvaro del Portillo 12.455
City Santiago
ZIP/Postal code 7620001
Country Chile
 
Platforms (1)
GPL15433 Illumina HiSeq 1000 (Homo sapiens)
Samples (5)
GSM5061776 ChIP_GFP+ control
GSM5061777 ChIP_HMGN5+R1
GSM5061778 ChIP_HMGN5+R2
This SubSeries is part of SuperSeries:
GSE166103 HMGN5, an RNA and Nucleosome binding protein required for chromatin de-condensation and gene activation
Relations
BioProject PRJNA699260
SRA SRP304546

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE166098_annotated_peaks.txt.gz 362.0 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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