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Studying changes in chromatin accessibility in A549 cells by ATAC-seq after glucocorticoid re-induction

ABSTRACT: Studying changes in chromatin accessibility in A549 cells by ATAC-seq after glucocorticoid re-induction

PROVIDER: PRJEB41975 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR4983305_1.fastq.gz	Fastqsanger.gz
	ERR4983305_2.fastq.gz	Fastqsanger.gz
	ERR4983306_1.fastq.gz	Fastqsanger.gz
	ERR4983306_2.fastq.gz	Fastqsanger.gz
	ERR4983307_1.fastq.gz	Fastqsanger.gz

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Total RNA-seq in the A549 cell line after glucocorticoid re-induction

Project description:Total RNA-seq in the A549 cell line after glucocorticoid re-induction

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Circularized chromosome conformation capture (4C-seq) in A549 cells after glucocorticoid re-induction

Project description:Circularized chromosome conformation capture (4C-seq) in A549 cells after glucocorticoid re-induction

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Studying changes in chromatin accessibility in A549 cells by ATAC-seq after glucocorticoid re-induction

Project description:We performed ATAC-seq in the A549 cell line. Cells were treated with either 100 nM dexamethasone or 0.1% ethanol. After 4 hours, cells were washed 2x with PBS and cultured in hormone-free medium for 24 hours, after which cells were treated again for 4 hours with either 100 nM dexamethasone or 0.1% ethanol.

2021-05-03 | E-MTAB-9912 | biostudies-arrayexpress

Total RNA-seq in the A549 cell line after glucocorticoid re-induction

Project description:We performed total RNA-seq in the A549 cell line. Cells were treated with either 100 nM dexamethasone or 0.1% ethanol. After 4 hours, cells were washed 2x with PBS and cultured in hormone-free medium for 24 hours, after which cells were treated again for 4 hours with either 100 nM dexamethasone or 0.1% ethanol.

2021-05-03 | E-MTAB-9923 | biostudies-arrayexpress

Circularized chromosome conformation capture (4C-seq) in A549 cells after glucocorticoid re-induction

Project description:We performed 4C-seq in the A549 cell line to investigate changes in chromatin interactions at the ZBTB16 locus. Cells were treated with either 100 nM dexamethasone or 0.1% ethanol. After 4 hours, cells were washed 2x with PBS and cultured in hormone-free medium for 24 hours, after which cells were treated again for 4 hours with either 100 nM dexamethasone or 0.1% ethanol. Experiments were performed in two biological replicates. For each treatment, 4C-seq data were generated for the following two viewpoints: ZBTB16 promoter-proximal viewpoint coordinates: chr11:113929670-113930464 (hg19) ZBTB16 intronic viewpoint coordinates: chr11:114051224-114051804 (hg19)

2021-05-03 | E-MTAB-9915 | biostudies-arrayexpress

Studying changes in chromatin accessibility in A549 cells by ATAC-seq directly after 4-hour glucocorticoid treatment and following a 24-hour hormone washout

Project description:Studying changes in chromatin accessibility in A549 cells by ATAC-seq directly after 4-hour glucocorticoid treatment and following a 24-hour hormone washout

| PRJEB41966 | ENA

Studying changes in chromatin accessibility in A549 cells by ATAC-seq directly after 20-hour glucocorticoid treatment and following a 24-hour hormone washout

Project description:Studying changes in chromatin accessibility in A549 cells by ATAC-seq directly after 20-hour glucocorticoid treatment and following a 24-hour hormone washout

| PRJEB41971 | ENA

Genome-wide profiling of Glucocorticoid receptor binding in A549, Nalm-6, MEF WT and MEF GCN5/PCAF double knockout (ChIP-seq)

Project description:To identify the sequences responsible for recruitment of Glucocorticoid receptor (GR) to individual loci, we performed ChIP-seq in four cell lines : A549 (ATTC:CCL-185), Nalm-6 (ATCC:CRL-1567), immortalized mouse embryonic fibroblasts (MEFs)(PMID 21131905), and immortalized PCAF-/-; GCN5flox/ MEFs (PMID 21131905) upon glucocorticoid treatment (1.5 hrs, 1M dexamethasone).

2016-11-10 | E-MTAB-5113 | biostudies-arrayexpress

Glucocorticoid Receptor (GR) ChIP-seq in A549 and U2OS cells

Project description:Glucocorticoid Receptor (GR) ChIP-seq in A549 and U2OS cells

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SUMOylation regulates chromatin protein network and accessibility at glucocorticoid receptor-binding sites

Project description:Glucocorticoid receptor (GR) is an essential transcription factor (TF), controlling metabolism, development and immune responses. SUMOylation regulates chromatin occupancy and target gene expression of GR in a locus-selective manner, but the mechanism of regulation has remained elusive. Here, we show using selective isolation of chromatin-associated proteins that the protein network around chromatin-bound GR is affected by SUMOylation, with several nuclear receptor coregulators and chromatin modifiers being more avidly associated with SUMOylation-deficient than SUMOylation competent GR. This difference is reflected in our chromatin accessibility and gene expression data, showing that the SUMOylation-deficient GR is more potent in opening chromatin at glucocorticoid-regulated enhancers and inducing expression of their target loci. Our results thus show that SUMOylation determines GR specificity by regulating the chromatin protein network and accessibility at GR-driven enhancers. We speculate that a similar mechanism is utilized by many other SUMOylated TFs.

2021-09-08 | PXD015183 | Pride

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