U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SRX6976254: GSM4116555: CTV-1_PU.1mRNA_DSG_FA_BRG1-ChIP_12; Homo sapiens; ChIP-Seq
1 ILLUMINA (NextSeq 550) run: 34.7M spots, 2.9G bases, 1.1Gb downloads

Submitted by: NCBI (GEO)
Study: The hematopoietic master transcription factor PU.1 requires its interaction with the SWI/SNF remodeler to access chromatin de novo [CTV1_TALL_HELP ChIP-seq]
show Abstracthide Abstract
PU.1 is a prototype master transcription factor (TF) of hematopoietic cell differentiation with diverse roles in different lineages. Analysis of its genome-wide binding pattern across PU.1 expressing cell types revealed manifold cell type-specific binding patterns. They are not consistent with the epigenetic and chromatin constraints to PU.1 binding observed in vitro, suggesting that PU.1 requires auxiliary factors to access DNA in vivo. Using a model of transient mRNA expression we show that PU.1 induction leads to the extensive remodeling of chromatin, redistribution of partner transcription factors, and rapid initiation of a myeloid gene expression program in heterologous cell types. By probing mutant PU.1 variants for defects in chromatin access and screening for PU.1 proximal proteins in vivo, we found that its N-terminal acidic domain was required for the recruitment of SWI/SNF remodeling complexes, de novo chromatin access and stable binding as well as the redistribution of partner TFs. Overall design: ChIP-seq data from cells transiently mRNA transfected with the transcription factor PU.1 and mutants
Sample: CTV-1_PU.1mRNA_DSG_FA_BRG1-ChIP_12
SAMN13012511 • SRS5501514 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: NextSeq 550
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Construction protocol: Lysates were preparated from sonicated nuclei and protein/histone-DNA complexes were isolated with antibody. ChIP construction was essentially done as described (Pham et al. 2012) with slight modifications for BRG1, ETS1 and FLI1 samples, which were prepared using dual crosslinking with 2 mM DSG (Thermo Fisher Scientific) and 1% formaldehyde. Libraries for sequencing were prepared using the NEBNext Ultra II DNA Library Prep Kit for Illumina according to manufacturer's instructions.
Experiment attributes:
GEO Accession: GSM4116555
Links:
Runs: 1 run, 34.7M spots, 2.9G bases, 1.1Gb
Run# of Spots# of BasesSizePublished
SRR1025838334,650,7282.9G1.1Gb2019-11-21

ID:
9177840

Supplemental Content

Search details

See more...

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...