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Series GSE79834 Query DataSets for GSE79834
Status Public on Oct 08, 2016
Title ZMYND8 co-localizes with NuRD on target genes and regulates recruitment of GATAD2A/NuRD to sites of DNA damage [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The NuRD complex is generally thought to repress transcription at both hyper- and hypomethylated regions in the genome. In addition, the complex is involved in the DNA damage response. Here, we show that ZMYND8 bridges NuRD to a number of putative DNA-binding zinc finger proteins. The ZMYND8 MYND domain directly interacts with PPPL? motifs in the NuRD subunit GATAD2A. Furthermore, GATAD2A and GATAD2B exclusively form homodimers and they thus define mutually exclusive NuRD subcomplexes. ZMYND8 and MBD3 share a large number of genome-wide binding sites, mostly active promoters and enhancers. Depletion of ZMYND8 does not affect NuRD occupancy genome-wide and expression of NuRD/ZMYND8 target genes in steady-state asynchronous cells. However, ZMYND8 facilitates immediate recruitment of GATAD2A/NuRD to induced sites of DNA damage. These results thus show that a specific substoichiometric interaction with a NuRD subunit paralogue provides unique functionality to a distinct NuRD subcomplex.
Overall design ChIP-seq samples for endogenous ZMYND8 (2 replicates), MBD3 (2 replicates), ZMYND8 in ZMYND8-KO cells, MBD3 in ZMYND8-KO cells, input of wild-type HeLa cells, GFP ChIP on WT HeLa cells, GFP ChIP on ZMYND8-GFP, GFP ChIP on GFP-GATAD2A and GFP ChIP on GFP-GATAD2B
Contributor(s) Spruijt CG
Citation(s) 27732854
Submission date Apr 01, 2016
Last update date May 15, 2019
Contact name Cornelia Gijsbertha Spruijt
Organization name Radboud University
Department RIMLS
Lab Proteomics and Chromatin Biology
Street address Geert Grooteplein 26-28
City Nijmegen
ZIP/Postal code 6525 GA
Country Netherlands
Platforms (3)
GPL9052 Illumina Genome Analyzer (Homo sapiens)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (11)
GSM2104430 input_HeLa
GSM2104432 ZMYND8_v1_Hela
This SubSeries is part of SuperSeries:
GSE79836 ZMYND8 co-localizes with NuRD on target genes and regulates recruitment of GATAD2A/NuRD to sites of DNA damage
BioProject PRJNA317161
SRA SRP072758

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Supplementary file Size Download File type/resource
GSE79834_RAW.tar 3.7 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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