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Mus musculus

ABSTRACT: Polycomb repressive complex 1 regulates the nucleosome landscape but not accessibility at target genes [ATAC-seq]

PROVIDER: PRJNA384987 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5488980_1.fastq.gz	Fastqsanger.gz
	SRR5488980_2.fastq.gz	Fastqsanger.gz
	SRR5488990_1.fastq.gz	Fastqsanger.gz
	SRR5488990_2.fastq.gz	Fastqsanger.gz
	SRR5489000_1.fastq.gz	Fastqsanger.gz

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ATAC seq data

Project description:Multiple myeloma is associated with an immunosuppressive bone marrow microenvironment instigated and maintained by crosstalk between multiple myeloma cells and the surrounding cells. This crosstalk is facilitated or hindered by epigenetic modifiers altering the gene expression of receptors. The Polycomb-like protein PHF19/PCL3, which mediates polycomb repressive complex 2 (PRC2) recruitment to chromatin, is a high-risk gene whose expression level correlates with poor prognosis in MM patients. Here, we used ATAC seq to define the chromatin accessibility and transcriptional landscape controlling this process by PHF19.

2023-01-31 | GSE224199 | GEO

KDM6A downregulation promotes tumor-prone cytokines expression in cancer-associated fibroblasts by activating enhancers

Project description:co-IP assays demonstrate that KDM6A is bound to WDR5, facilitating its association with the COMPASS complex and the polycomb repressive complex at the expected target loci.

2024-12-04 | PXD058594 |

LFQMS of RING2 (RING1B, RNF2) immunoprecipitation from MDA-MB-231 and T47D breast cancer cells

Project description:Polycomb repressive complex PRC1 is essential for gene regulation in numerous cell fate decisions. We show that RING1B (RING2, RNF2) and canonical PRC1 (cPRC1) genes are amplified and overexpressed in breast cancer (BC). Moreover, cPRC1 complexes functionally associate with genes regulated by cell type specific key transcription factors such as estrogen receptor (ER) in ER+ tumor cells and BRD4 in triple negative BC cells. cPRC1 is recruited to active enhancers in a manner independent of PRC2 and RING1B enzymatic activity. RING1B regulates enhancer activity and gene transcription not only by promoting the expression of BC oncogenes but also by regulating chromatin accessibility for oncogenic transcription factors. RING1B recruitment, and thus PRC1 association, to active enhancers occurs in multiple cancers.

2018-10-19 | PXD009570 | Pride

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.

2016-01-15 | E-GEOD-74977 | biostudies-arrayexpress

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