Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Localized condensation of the cBAF remodeler is governed by ARID1A/B and is required for transcriptional activation [RNA-seq]

ABSTRACT: This study investigates the role of the ARID1A/B subunits of the cBAF complex using in vitro and cell-based models. Specifically, we find that the N-terminal disordered region of ARID1A/B and the DNA binding ARID domain are required for condensation and proper orientation on chromatin respectively.

ORGANISM(S): Homo sapiens

PROVIDER: GSE209953 | GEO | 2023/10/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Localized condensation of the cBAF remodeler is governed by ARID1A/B and is required for transcriptional activation [ATAC-seq]

Project description:This study investigates the role of the ARID1A/B subunits of the cBAF complex using in vitro and cell-based models. Specifically, we find that the N-terminal disordered region of ARID1A/B and the DNA binding ARID domain are required for condensation and proper orientation on chromatin respectively.

2023-10-01 | GSE209959 | GEO

Localized condensation of the cBAF remodeler is governed by ARID1A/B and is required for transcriptional activation [CUT&Tag]

2023-10-01 | GSE209955 | GEO

Localized condensation of the cBAF remodeler is governed by ARID1A/B and is required for transcriptional activation [CUT&RUN]

Project description:Specifically, we find that the N-terminal disordered region of ARID1A/B and the DNA binding ARID domain are required for condensate formation and chromatin targeting.

2023-10-01 | GSE235698 | GEO

Localized condensation of the cBAF remodeler is governed by ARID1A/B and is required for transcriptional activation

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-10-01 | GSE209961 | GEO

ARID-DNA interactions are essential for SWI/SNF function

Project description:Every known SWI/SNF chromatin-remodeling complex incorporates an ARID DNA binding domain-containing subunit. Despite being a ubiquitous component of these complexes, physiological roles for this domain remain undefined. We screened an N-ethyl-N-nitrosurea (ENU) mutagenized library for ARID domain point mutations and generated an Arid1a/Baf250a hypomorphic allele. The mutant ARID1a (V1068G) protein is stably expressed at wild-type levels, and it is capable of assembling into a SWI/SNF complex with in vitro mononucleosome disruption activity. However, its capacity to bind DNA is lost. Consistent with defective DNA binding, mutant protein occupancy at known SWI/SNF target genes is decreased. Loss of DNA binding is associated with concurrent changes in SWI/SNF target gene expression. Mutant embryos manifest heart defects, fail to establish proper yolk sac vasculature, and exhibit hemorrhaging. As a result of these phenotypes, mutant embryos fail to establish proper circulation, culminating in ischemic arrest in utero between days 9.5 and 11.5. These data support a role for ARID1a-containing, BAF-A complexes in heart and extraembryonic vascular development, and indicate the ARID domain of ARID1a is essential in this regard. Hence, intrinsic ARID subunit-DNA interactions are required for normal SWI/SNF function in vivo. Four-condition experiment, wild-type vs Baf250a/Arid1a^V1068G/V1068G yolk sacs isolated at E8.5 and E9.5. Biological replicates: 3 per condition.

2012-01-15 | E-GEOD-32116 | biostudies-arrayexpress

Chromatin binding of RUNX1 in T-cell acute lymphoblastic leukemia (T-ALL) cells with depletion cBAF complex [ChIP-seq]

Project description:Using ChIP-seq of RUNX1 in the cells with cBAF-targeting gRNA, we identified RUNX1 binding chromain loci which is regulated by cBAF complex

2023-11-04 | GSE243007 | GEO

Chromatin accessibility of T-cell acute lymphoblastic leukemia (T-ALL) cells with depletion or inhbiiton of cBAF complex [ATAC-seq]

Project description:Using ATAC-seq of the cells with cBAF-targeting gRNA or inhibitor, we identified chromatin loci whose accessibility was regulated by cBAF complex

2023-11-04 | GSE227273 | GEO

Expression profiles of T-cell acute lymphoblastic leukemia (T-ALL) cell lines with depletion or inhbiiton of cBAF complex [RNA-seq]

Project description:From comparative transcriptome analysis using RNA-seq of the cells with cBAF-targeting gRNA or inhibitor, we identified the genes regulated by cBAF complex in T-ALL cell lines

2023-11-04 | GSE227274 | GEO

Genome-wide maps of SWI/SNF complexes binding in WT and ARID1-less H2.35 cells

Project description:Globally, the three categories of intact SWI/SNF complexes in control cells have shared and unique binding peaks, with cBAF showing the most abundant binding sites followed by ncBAF and pBAF. In control cells, within cBAF, ARID1B bound to only a subset of ARID1A peaks. In control cells, the binding pattern of BAF45d corresponded to ARID1A patterns, but binding was virtually eliminated in ARID1-less cells. In ARID1-less cells, ARID2 binding was essentially eliminated whereas Brd9 binding was unaltered.

2020-06-10 | GSE140183 | GEO

The Pkm duet: Coordinating C2C12 myoblast proliferation and differentiation through Histone 3 phosphorylation and cBAF complex dynamics

Project description:Pkm1 and Pkm2 kinases are expressed in differentiating skeletal myoblasts. Knockdown of Pkm1 or Pkm2, therefore, can affect myoblast differentiation, by two independent regulatory mechanisms involving histone phosphorylation and chromatin remodeling complexes. Pkm2 KD in C2C12 cells reduced the chromatin marks of phosphorylated H3-T6, H3-T11 and H3-T45 into several essential myogenic promoters, and consequently, prevented their expression. Also, the transcriptional analysis demonstrated that Pkm2 is required for the expression of the cBAF-specific subunits Dpf2 and Baf250a, which we have previously demonstrated are essential for myogenesis. In contrast, Pkm1 KD alters the localization of nuclear Dpf2 into the cytoplasm as well. Mechanistically, Pkm KD resulted in decreased binding of cBAF components to their myogenic target genes, which also suggested a positive regulation between the cBaf complex and the H3 phosphorylation marks.

2024-05-01 | GSE252751 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data