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Nuclear receptor activation leads to functional changes in CTCF-defined chromatin structure [HiChIP]

ABSTRACT: Nuclear receptor activation leads to functional changes in CTCF-defined chromatin structure [HiChIP]

PROVIDER: PRJNA778665 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR16849263_1.fastq.gz	Fastqsanger.gz
	SRR16849263_2.fastq.gz	Fastqsanger.gz
	SRR16849264_1.fastq.gz	Fastqsanger.gz
	SRR16849264_2.fastq.gz	Fastqsanger.gz
	SRR16849265_1.fastq.gz	Fastqsanger.gz

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Nuclear receptor activation leads to functional changes in CTCF-defined chromatin structure [HiChIP]

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Nuclear receptor activation leads to functional changes in CTCF-defined chromatin structure

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CTCF HiChIP data in A673 Ewing sarcoma cell lines (siCT & siSA2)

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CTCF HiChIP experiments in cells treatd with control shRNA or BHLHE40 shRNA

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Nuclear receptor activation leads to functional changes in CTCF-defined chromatin structure

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

2022-04-27 | GSE190464 | GEO

Nuclear receptor activation leads to functional changes in CTCF-defined chromatin structure [Hi-C]

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CTCF HiChIP data in A673 Ewing sarcoma cell lines (siCT & siSA2)

Project description:CTCF HiChIP data in A673 Ewing sarcoma cell lines (siCT & siSA2)

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CTCF HiChIP experiments in cells treatd with control shRNA or BHLHE40 shRNA

Project description:CTCF HiChIP experiments in cells treatd with control shRNA or BHLHE40 shRNA

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HiChIP data in A673 & TC71 Ewing cell lines (STAG1 and STAG2 knock-out)

Project description:STAG2, a member of cohesin, is one of the most recurrently mutated genes in human cancer. Here, we investigated STAG2 function in the context of Ewing sarcoma. Using a CRISPR/Cas9 approach, we generated two STAG2 knock-out isogenic clones (A673_SA2m#1 and TC71_SA2m#2) derived from A673 and TC71 STAG2 wild type (WT) Ewing sarcoma cell line. A STAG2 rescue model (A673_SA2r) was generated by correcting the CRISPR mutation in the A673_SA2m#1 model. These STAG1/2 proficient and deficient models were profiled by CTCF HiChIP experiments. STAG2 isogenic models were also profiled by H3K27ac HiChIP experiments. Analyses of HiChIP data allowed to show that STAG2 promotes CTCF-anchored loop extrusion and cis-promoter and -enhancer interactions.

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