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| Status |
Public on May 08, 2024 |
| Title |
HMGN5, an RNA and Nucleosome binding protein required for chromatin de-condensation and gene activation [CLIP-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression 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.
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| Overall design |
This serie includes CLIP-seq data from cells overexpresiong HMGN5-GFP (3 replicates), and the control cell line overexpressing GFP (2 replicates)
|
| Web link |
https://www.biorxiv.org/content/10.1101/2022.07.15.500188v1
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| |
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| 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 |
| |
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| Platforms (1) |
| GPL15433 |
Illumina HiSeq 1000 (Homo sapiens) |
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| Samples (5)
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| This SubSeries is part of SuperSeries: |
| GSE166103 |
HMGN5, an RNA and Nucleosome binding protein required for chromatin de-condensation and gene activation |
|
| Relations |
| BioProject |
PRJNA699269 |
| SRA |
SRP304559 |
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