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Gene expression profiles under oxidative stress conditions in human HaCaT keratinocytes and the derivative cells expressing shRNA against NRF2, MLL1, or UTX.

ABSTRACT: Gene expression profiles under oxidative stress conditions in human HaCaT keratinocytes and the derivative cells expressing shRNA against NRF2, MLL1, or UTX.

PROVIDER: PRJNA1052078 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27200460_1.fastq.gz	Fastqsanger.gz
	SRR27200460_2.fastq.gz	Fastqsanger.gz
	SRR27200461_1.fastq.gz	Fastqsanger.gz
	SRR27200461_2.fastq.gz	Fastqsanger.gz
	SRR27200462_1.fastq.gz	Fastqsanger.gz

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Gene expression profiles under oxidative stress conditions in human HaCaT keratinocytes and the derivative cells expressing shRNA against NRF2, MLL1, or UTX.

Project description:To determine how transcriptome is altered by knockdown of NRF2, MLL1, or UTX, we performed RNA-sequencing (RNA-seq) analysis of HaCaT cells and its shRNA-expressing derivatives before and after exposure to hydrogen peroxide (H2O2) or cerium oxide nanoparticles (CeO2 NPs).

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Genomic occupancies of MLL1 and UTX, and H3K4me3/K3K27me3 histone modifications upon hydrogen peroxide treatment in human HaCaT keratinocytes.

Project description:ChIP-seq analysis was conducted to investigate the effects of hydrogen peroxide (H2O2) treatment on the occupancy of MLL1 and UTX, and the associated histone modifications in HaCaT cells.

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Genomic occupancies of MLL1 and UTX, and H3K4me3/K3K27me3 histone modifications upon hydrogen peroxide treatment in human HaCaT keratinocytes.

Project description:Genomic occupancies of MLL1 and UTX, and H3K4me3/K3K27me3 histone modifications upon hydrogen peroxide treatment in human HaCaT keratinocytes.

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Expression analysis on Mll1+/+ and Mll1-/- MEFs

Project description:Global analysis of H3K4 methylation defines MLL family member targets and points to a role for MLL1-mediated H3K4 methylation in the regulation of transcriptional initiation by RNA polymerase II A common landmark of activated genes is the presence of trimethylation on lysine 4 of histone H3 (H3K4) at promoter regions. The Set1/COMPASS was the founding member and the only H3K4 methylases in S. cerevisiae, however, in mammals at least six H3K4 methylases Set1A/B and MLL1-4 are found in COMPASS-like complexes capable of methylating H3K4. To gain further insight into the different roles and functional targets for the H3K4 methylases, we have undertaken a genome-wide analysis of H3K4 methylation pattern in wild-type Mll1+/+ and Mll1-/- mouse fibroblasts (MEFs). We found that Mll1 is required for the H3K4 trimethylation of less than 5% of promoters carrying this modification. Many of these genes, which include developmental regulators such as Hox genes show decreased levels of RNA polymerase II recruitment and expression concomitant with the loss of H3K4 methylation. Although Mll1 is only required for the methylation of a subset of Hox genes, Menin, a component of the Mll1 and Mll2 complexes, is required for the overwhelming majority of H3K4 methylation at Hox loci. However, the loss of MLL3/4 and/or the Set1 complexes have little to no effect on the Hox loci H3K4 methylation or expression levels in these MEFs. Together these data provide insight into redundancy and specialization of COMPASS-like complexes in mammals and provide evidence on a possible role for Mll1-mediated H3K4 methylation in the regulation of transcriptional initiation. Expression arrays were done with Mll1+/+ and Mll1-/- mouse embryonic fibroblasts. Four replicates were done (dyes were swapped). DNA was hybridized to Agilent Mouse Whole Genome Expression Arrays (4x44k).

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Expression analysis on Mll1+/+ and Mll1-/- MEFs

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HNF1A, UTX, H3K27me3 and H3K27ac ChIP-seq in wild-type and UTX- or HNF1A-deficient mouse pancreas

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