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ABSTRACT: H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction

PROVIDER: PRJNA185197 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR639251_1.fastq.gz	Fastqsanger.gz
	SRR639251_2.fastq.gz	Fastqsanger.gz
	SRR639252_1.fastq.gz	Fastqsanger.gz
	SRR639252_2.fastq.gz	Fastqsanger.gz
	SRR639253_1.fastq.gz	Fastqsanger.gz

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Project description:H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction [Agilent array]

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Project description:H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction (I) [ChIP-Seq]

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Project description:H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction (II) [ChIP-Seq]

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H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction (I) [ChIP-Seq]

Project description:We report that acetylation of H4K16 is a new marker of active enhancers and that some enhancers are marked by H3K4me1, MOF and H4K16ac but not by acetylated H3K27 or p300, suggesting that they are novel p300-independent regulatory elements. ChIP-seq for H4K16 acetylation in undifferentiated ES cells, and cells after 3 days of retinoic acid differentiation, along with MNase digested input for both samples

2013-08-23 | E-GEOD-43102 | biostudies-arrayexpress

H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction (II) [ChIP-Seq]

Project description:We report that acetylation of H4K16 is a new marker of active enhancers and that some enhancers are marked by H3K4me1, MOF and H4K16ac but not by acetylated H3K27 or p300, suggesting that they are novel p300-independent regulatory elements. ChIP-seq for H4K16 acetylation in undifferentiated 46c(sox1-gfp) ES cells, and FACS sorted day 5 Neural Progenitor Cells (differentiated with NB27 and Neuro2 medium supplements) , along with MNase digested input for both samples

2013-08-23 | E-GEOD-47761 | biostudies-arrayexpress

Histone H3 globular domain acetylation identifies novel enhancers

Project description:We report the acetylation of lysine residues in the globular domain of H3 (H3K64ac and H3K122ac) marks active gene promoters and also a subset of active enhancers in mouse embryonic stem cells (mESCs), human erythroleukemic cell line (K562). Moreover, we find a novel class of active functional enhancers in ESCs that are marked by H3K122ac but which lack H3K27ac. This work suggests that a more complex analysis of histone acetylation is required to identify enhancers than was previously considered. Examination of histone modifications in mouse ESCs (2 biological replicates) and K562 cells

2016-03-12 | E-GEOD-66023 | biostudies-arrayexpress

H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction [NimbleGen array]

Project description:We report that acetylation of H4K16 is a new marker of active enhancers and that some enhancers are marked by H3K4me1, MOF and H4K16ac but not by acetylated H3K27 or p300, suggesting that they are novel p300-independent regulatory elements. ChIP on chip over neuronal and control genes for H4K16ac in undifferentiated 46c (sox1-gfp) ES cells and for 5 day differentiated FACS sorted Neural Progenitor Cells differentiated with NB27 and Neuro2 medium supplements

2013-08-23 | E-GEOD-47762 | biostudies-arrayexpress

Hypoxia promotes osteogenesis via regulating the acetyl-CoA-mediated mito-nuclear communication.

Project description:Bone-mesenchymal stem cells (MSCs) reside in a hypoxic niche that maintains their differentiation potential. Although the role of hypoxia (low oxygen concentration) in the regulation of stem cell function has been previously reported, with normoxia (high oxygen concentration) leading to impaired osteogenesis, the molecular events triggering changes in stem cell fate decisions in response to high oxygen remain elusive. Here, we study the impact of normoxia on the mito-nuclear communication with regards to stem cell differentiation. We show that normoxia-cultured MSCs undergo profound transcriptional alterations which cause irreversible osteogenesis defects. Mechanistically, high oxygen promotes chromatin compaction and histone hypo-acetylation, particularly on promoters and enhancers of osteogenic genes. Although normoxia induces metabolic rewiring resulting in high acetyl-CoA levels, histone hypo-acetylation occurs due to trapping of acetyl-CoA inside mitochondria, owing to lower CiC activity. Strikingly, restoring the cytosolic acetyl-CoA pool remodels the chromatin landscape and rescues the osteogenic defects. Collectively, our results demonstrate that the metabolism-chromatin-osteogenesis axis is heavily perturbed in response to high oxygen and identify CiC as a novel, oxygen-sensitive regulator of the MSC function.

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H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction [Agilent array]

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