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Series GSE148296 Query DataSets for GSE148296
Status Public on May 13, 2020
Title HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription [ATAC-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Functional crosstalk between histone modifications and chromatin remodeling has emerged as a key regulatory mode of transcriptional control during cell fate decisions, but the underlying mechanisms are not fully understood. Here we demonstrate that HRP2-DPF3a-BAF complex coordinates histone H3 lysine 36 methylation (H3K36me) and ATP-dependent chromatin remodeling to regulate chromatin dynamic and gene transcription during myogenic differentiation. Mechanistically, through its HIV integrase binding domain (IBD), HRP2 associates with BRG1/BRM associated factor (BAF) chromatin remodeling complex by direct interaction with BAF45c (DPF3a) subunit. Through its Pro-Trp-Trp-Pro (PWWP) domain, HRP2 preferentially binds to H3K36me2. Integrative transcriptomic and cistromic analyses, coupled with ATAC-seq, reveal that HRP2 and DPF3a activate myogenic genes by increasing chromatin accessibility through recruitment of BRG1, the ATPase subunit of the BAF complex.
 
Overall design ATAC-seq analysis from C2C12 transfected with siRNAs against Hrp2/Dpf3a or control 24h before start of differentiation. Cells were harvested for chromatin accessibility profiling after 48h of differentiation in differentiation medium. Two replicates were performed per siRNA.
 
Contributor(s) Zhu X, Lan B, Yi X
Citation(s) 32459350
Submission date Apr 08, 2020
Last update date Jul 20, 2020
Contact name Bingxue Lan
Organization name Tianjin Medical University
Street address Qixiangtai road
City Tianjin
ZIP/Postal code 300070
Country China
 
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (6)
GSM4459846 sicontrol-1
GSM4459847 sicontrol-2
GSM4459848 siDPF3a-1
This SubSeries is part of SuperSeries:
GSE141407 HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription
Relations
BioProject PRJNA623794
SRA SRP255723

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Supplementary file Size Download File type/resource
GSE148296_RAW.tar 1.0 Gb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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