Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Human SMARCA5 Is Continuously Required to Maintain Nucleosome Spacing [RNA-seq]

ABSTRACT: Genetic models suggested that SMARCA5 was required for DNA templated events including transcription, DNA replication and DNA repair. We engineered a degron tag into the endogenous alleles of SMARCA5, a catalytic component of the imitation switch (ISWI) complexes, in three different human cell lines to define the effects of rapid degradation of this key regulator. Degradation of SMARCA5 was associated with a rapid increase in global nucleosome repeat length, which may allow greater chromatin compaction. However, there were few changes in nascent transcription within the first 6hr of degradation. Nevertheless, we demonstrated a requirement for SMARCA5 to control nucleosome repeat length at G1/S and during the S phase. SMARCA5 co-localized with CTCF and H2A.Z, and we found a rapid loss of CTCF DNA binding and disruption of nucleosomal phasing around CTCF binding sites. This spatiotemporal analysis indicates that SMARCA5 is continuously required for maintaining nucleosomal spacing.

ORGANISM(S): Homo sapiens

PROVIDER: GSE160458 | GEO | 2023/03/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Human SMARCA5 Is Continuously Required to Maintain Nucleosome Spacing [MNAse-Seq]

Project description:Genetic models suggested that SMARCA5 was required for DNA templated events including transcription, DNA replication and DNA repair. We engineered a degron tag into the endogenous alleles of SMARCA5, a catalytic component of the imitation switch (ISWI) complexes, in three different human cell lines to define the effects of rapid degradation of this key regulator. Degradation of SMARCA5 was associated with a rapid increase in global nucleosome repeat length, which may allow greater chromatin compaction. However, there were few changes in nascent transcription within the first 6hr of degradation. Nevertheless, we demonstrated a requirement for SMARCA5 to control nucleosome repeat length at G1/S and during the S phase. SMARCA5 co-localized with CTCF and H2A.Z, and we found a rapid loss of CTCF DNA binding and disruption of nucleosomal phasing around CTCF binding sites. This spatiotemporal analysis indicates that SMARCA5 is continuously required for maintaining nucleosomal spacing.

2023-03-01 | GSE220778 | GEO

Human SMARCA5 Is Continuously Required to Maintain Nucleosome Spacing [ATAC-seq]

2023-03-01 | GSE160469 | GEO

Human SMARCA5 Is Continuously Required to Maintain Nucleosome Spacing [CUT&RUN]

2023-03-01 | GSE160468 | GEO

Human SMARCA5 Is Continuously Required to Maintain Nucleosome Spacing [PRO-seq]

2023-03-01 | GSE160459 | GEO

Mammalian ISWI and SWI/SNF selectively mediate binding of distinct groups of transcription factors (Bis-seq data sets)

Project description:Remodelers define nucleosome composition, presence and position. Mammalian imitation-switch-type (ISWI) comprise one class, mostly relying on the ATPase Snf2h for activity. We show that embryonic stem cells are viable without Snf2h, enabling to study its function and contrast it to Brg1, the ATPase of SWI/SNF. Loss of Snf2h specifically affects nucleosomal positioning and increases linker lengths genome-wide providing in vivo evidence for ISWI function in ruling nucleosomal spacing. Systematic analysis of transcription factor binding reveals selective requirement on either remodeling activity. One group, containing the transcriptional repressor REST depend on BRG1, while a non-overlapping set including the insulator protein CTCF, relies on Snf2h. Importantly localized reduction in CTCF binding decreases long-range interactions. Collectively, this links mammalian ISWI to nuclear organization, demonstrates its cellular role for nucleosomal periodicity and reveals that transcription factors rely on specific remodeling pathways for proper genomic binding.

2019-04-18 | GSE112131 | GEO

Mammalian ISWI and SWI/SNF selectively mediate binding of distinct groups of transcription factors (ATAC-seq data sets)

2019-04-18 | GSE112130 | GEO

Mammalian ISWI and SWI/SNF selectively mediate binding of distinct groups of transcription factors (RNA-seq data sets)

2019-04-18 | GSE112135 | GEO