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Mus musculus

ABSTRACT: Genome-wide maps of histone modifications in WT, Dnmt3a-/- and Tet1-/- J1 ES cells.

PROVIDER: PRJNA393521 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5812880_1.fastq.gz	Fastqsanger.gz
	SRR5812880_2.fastq.gz	Fastqsanger.gz
	SRR5812881_1.fastq.gz	Fastqsanger.gz
	SRR5812881_2.fastq.gz	Fastqsanger.gz
	SRR5812882_1.fastq.gz	Fastqsanger.gz

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Chip-chip in the complete absence of DNA methylation with H3K4me2, H3K9me2 and H3K27me3

Project description:Using all three CpG DNA methyltransferases, Dnmt1, Dnmt3a and Dnmt3b deficient (TKO) mouse ES cells and TKO ntTS cells, we examined three histone modifications H3K4me2, H3K27me3 and H3K9me2, of promoter region in ES, TS and Flk1+ mesodermal cells with WT or TKO background by ChIP-chip analysis. Global profile analysis of gene expression and histone modification showed that the difference of profiles was mainly lineage dependent. Although the effects of DNA methylation loss in three lineages were modest, H3K27me3 is most sensitive to DNA methylation among three modifications. Interestingly, differentially expressed genes between WT and TKO cells were also lineage dependent and small number of genes was overlapped between lineages. Our further analysis showed that the profiles of H3K27me3 modifications were dynamically changed between lineages, especially in TS cells, and the pattern of H3K27me3 modification was defectively established by loss of DNA methylation. Our data suggest that DNA methylation contributes to lineage dependent expression regulation by collaborating with histone modification.

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