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ChIP after EBF1 degradation

ABSTRACT: ChIP after EBF1 degradation

PROVIDER: PRJNA828551 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18837415_1.fastq.gz	Fastqsanger.gz
	SRR18837415_2.fastq.gz	Fastqsanger.gz
	SRR18837416_1.fastq.gz	Fastqsanger.gz
	SRR18837416_2.fastq.gz	Fastqsanger.gz
	SRR18837417_1.fastq.gz	Fastqsanger.gz

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ChIP after EBF1 degradation

Project description:We used the dTAG protein degradation system to rapidly deplete transcription factor EBF1 in the B cell culture. After treatment with dTAG-13 for 6 hours, we performed ChIP-seq, ATAC-seq, and RNA-seq. After the treatment, EBF1 is completely absent from the chromatin. This leads to the closure of EBF1 binding sites and changes in the target gene expression. This approach allowed us to identify direct targets of EBF1 and show the importance of EBF1 for open chromatin maintenance.

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Project description:EBF1 is essential for B cell specification and commitment. To explore the dynamics of EBF1 initiated B cell programming, we performed EBF1 ChIP-seq, ATAC-seq, bisulfite-seq, RNA-seq and several histone ChIP-seq analyses at different stages of the transition from Ebf1-/- pre-pro-B to pro-B triggered by EBF1 restoration. We also performed Pax5 ChIP-seq in Ebf1-/- pre-pro-B cell and EBF1-restored pro-B cell to study the pioneering function of EBF1 that allows other transcription factors to access certain chromatin sites.

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