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Mus musculus

ABSTRACT: DDX5-deficient affect cell fate decision by regulating lineage specific genes and polycomb repressive complexes [RNA-seq]

PROVIDER: PRJNA308722 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5004510_1.fastq.gz	Fastqsanger.gz
	SRR5004510_2.fastq.gz	Fastqsanger.gz
	SRR5004511_1.fastq.gz	Fastqsanger.gz
	SRR5004511_2.fastq.gz	Fastqsanger.gz
	SRR5004512_1.fastq.gz	Fastqsanger.gz

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Project description:DDX5-deficient affect cell fate decision by regulating lineage specific genes and polycomb repressive complexes [miRNA-seq]

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DDX5-deficiency affects cell fate decisions by regulating lineage specific genes and polycomb repressive complexes

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Project description:DDX5-deficiency affects cell fate decisions by regulating lineage specific genes and polycomb repressive complexes

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Pioneer transcription factors coordinate active and repressive gene expression states to regulate cell fate [CUT&Run and ChIP-seq]

Project description:Pioneer transcription factors (TFs) regulate cell fate by establishing transcriptionally primed and active states. However, cell fate control requires the coordination of both lineage-specific gene activation and repression of alternative lineage programs, a process that is poorly understood. Here, we demonstrate that the pioneer TF Forkhead box A (FOXA), required for endoderm lineage commitment, coordinates with the PR domain zinc finger 1 (PRDM1) TF to recruit Polycomb repressive complexes, which establish bivalent enhancers and repress alternative lineage programs. Similarly, the pioneer TF OCT4 coordinates with PRDM14 to repress cell differentiation programs in pluripotent stem cells, suggesting this is a common feature of pioneer TFs. We propose that pioneer and PRDM TFs coordinate recruitment of Polycomb complexes to safeguard cell fate.

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Pioneer transcription factors coordinate active and repressive gene expression states to regulate cell fate [RNA-seq]

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PCGF1-PRC1 safeguards recovery of nucleosome positioning during S-phase to ensure early hematopoiesis

Project description:Polycomb repressive complexes 1 and 2 (PRC1 and 2) repress lineage inappropriate genes during development to maintain proper cellular identities. To reveal the function of a variant PRC1 containing PCGF1 (PCGF1-PRC1), we prepared PCGF1 interacting proteins by immunoprecipitation and characterized them by LC-MS/MS.

2023-05-13 | PXD033883 | JPOST Repository

PRC2 specifies ectoderm lineages and maintains pluripotency in primed but not naïve ESCs

Project description:Polycomb repressive complex 2 and the epigenetic mark that it deposits, H3K27me3, are evolutionarily conserved and play critical roles in development and cancer. However, their roles in cell fate decisions in early embryonic development remain poorly understood. Here we report that knockout of polycomb repressive complex 2 genes in human embryonic stem cells causes pluripotency loss and spontaneous differentiation toward a meso-endoderm fate, owing to de-repression of BMP signalling. Moreover, human embryonic stem cells with deletion of EZH1 or EZH2 fail to differentiate into ectoderm lineages. We further show that polycomb repressive complex 2-deficient mouse embryonic stem cells also release Bmp4 but retain their pluripotency. However, when converted into a primed state, they undergo spontaneous differentiation similar to that of hESCs. In contrast, polycomb repressive complex 2 is dispensable for pluripotency when human embryonic stem cells are converted into the naive state. Our studies reveal both lineage- and pluripotent state-specific roles of polycomb repressive complex 2 in cell fate decisions.

2017-06-25 | GSE92625 | GEO

Gene regulation by PCGF1 in hematopoietic progenitor cells

Project description:Polycomb group proteins (PcG), namely polycomb repressive complexes 1 and 2 (PRC1 and 2), repress lineage inappropriate genes during development to maintain proper cellular identities. It has been recognized that PRC1 localizes at replication fork, however, the precise functions of PRC1 during DNA replication are elusive. In this study, to elucidate the role of PCGF1 in the fork we’ve examined nucleosome occupancy at the fork by iPOND-MNase seq. In addition we’ve examined the biological relevancy by performing single cell RNA-seq derived Pcgf1 deficient hematopoietic progenitor cells to describe how cellular fate is affected by the impact of PCGF1 on nascent nucleosome configuration.

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Helin M.musculus Identification of genes repressed by CBX8 and BMI1

Project description:The polycomb group proteins form large repressive complexes. It has recently become evident, via ChIP on chip analysis, that the polycomb complexes, PRC1 and PRC2, target a large number of genes (Boyer et al., 2006; Bracken et al., 2006; Tolhuis et al., 2006), which are involved in cell fate decisions. In order to identify genes which are truly regulated by the polycomb group proteins, CBX8 and BMI1, we expressed these two proteins in mouse embryonic fibroblasts (MEFs) by retroviral infection.

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Polycomb Repressive Complex 2 regulates basal cell fate during adult olfactory neurogenesis [EEDKO_H3K27me3_ChIP]

Project description:We show that Polycomb repressive complexes (PRCs) regulate lineage choice between neural and non-neural fates in the olfactory epithelium. Conditional loss of Polycomb repressive complex 2 perturbs lesion-induced neurogenesis and misexpression of lineage-specific transcription factors in multipotent olfactory globose basal cells.

2023-09-18 | GSE234634 | GEO

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