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LRF genome-wide occupancy in CD4+ T cells

ABSTRACT: LRF genome-wide occupancy in CD4+ T cells

PROVIDER: PRJNA630744 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11713570_1.fastq.gz	Fastqsanger.gz
	SRR11713570_2.fastq.gz	Fastqsanger.gz
	SRR11713571_1.fastq.gz	Fastqsanger.gz
	SRR11713571_2.fastq.gz	Fastqsanger.gz
	SRR11713572_1.fastq.gz	Fastqsanger.gz

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LRF genome-wide occupancy in CD4+ T cells

Project description:To examine whether LRF protein could bind cis-regulatory elements in the genes that LRF regulates. We performed Chromatin immunoprecipitation followed by deep-sequencing (ChIPseq) on activated T cells using an in vivo biotinylation and streptavidin pull-down approach.

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The LRF/ZBTB7A transcription factor is a BCL11A-independent repressor of fetal hemoglobin

Project description:Hemoglobinopathies, including sickle cell disease and _-thalassemia, are global public health concerns. Induction of fetal-type hemoglobin (HbF) is a promising means to treat these disorders; however, precisely how HbF expression is silenced in adult erythroid cells is not fully understood. Here, we show that the LRF/ZBTB7A transcription factor is a potent repressor of HbF production. LRF inactivation derepresses embryonic/fetal _-globin expression in mouse and human adult erythroid cells. We employed genome-wide analysis of the transcriptome, chromatin accessibility and LRF occupancy sites, and demonstrate that LRF occupies the _-globin loci and maintains nucleosome density necessary for _-globin silencing. LRF confers its repressive activity through a unique NuRD repressor complex independent of BCL11A. Strikingly, human erythroid lines lacking both LRF and BCL11A exhibited almost a complete switch in expression from adult- to fetal-type globin, suggesting that these two factors cumulatively represent the near entirety of _-globin repressive activity in adult erythroid cells. RNA-seq, LRF ChIP-seq and ATAC-seq assays were used to investigtae LRF binding, effect of LRF depletion on transcription and chromatin landscape in mouse and human cells.

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Single-cell Gene expression of WT and LRF-deficient thymic IEL precusors (IELp)

Project description:To examine how the cluster composition of IELp and their transcriptomic signatures were affected by LRF disruption, single-cell gene expression of IELp from control (Cd4 Cre–Lrffl/fl) and LRF KO(Cd4 Cre+Lrffl/fl )mice were determined by scRNAseq

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Single-cell Gene expression of WT CD8aa IEL and LRF-deficient CD8aa splenocytes

Project description:To examine how the cluster composition of CD8aa IEL and their transcriptomic signatures were affected by LRF disruption, single-cell gene expression of CD8aa IEL from control (Cd4 Cre–Lrffl/fl) and CD8aa splenocytes from LRF KO (Cd4 Cre+Lrffl/fl ) mice were determined by scRNAseq.

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