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Identification of GFI1 target genes in human lung adenocarcinoma cell line A549 [ChIP-seq]

ABSTRACT: Identification of GFI1 target genes in human lung adenocarcinoma cell line A549 [ChIP-seq]

PROVIDER: PRJNA692728 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13450200_1.fastq.gz	Fastqsanger.gz
	SRR13450200_2.fastq.gz	Fastqsanger.gz
	SRR13450197_1.fastq.gz	Fastqsanger.gz
	SRR13450197_2.fastq.gz	Fastqsanger.gz
	SRR13450198_1.fastq.gz	Fastqsanger.gz

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Project description:MDS is characterized by a disturbed function of the myeloid lineage of the hematopoietic system that may transform to AML, a malignant disease of the myeloid compartment. Epigenetic and genetic aberrations contribute to the initiation and progression of MDS/AML. GFI1 is a transcriptional repressor, which regulates expression of its target genes by, among other approaches, recruiting HDACs to its target genes to remove histone 3 lysine 9 (H3K9) acetylation, a marker for active gene expression. Low levels of GFI1 expression and deletion of one GFI1 allele contribute to MDS/AML development in human patients and are associated with a specific gene expression signature and inferior prognosis. To explore the mechanism behind this, we used a mouse strain, which expresses GFI1 only at 5-10% of the normal level (GFI1-Knock-down (KD)). Knock-down of GFI1 or loss of one murine Gfi1 allele reduced latency and increased incidence of AML in different murine models of human MDS/AML development. On the epigenetic level, KD of Gfi1 lead to increased amount of H3K9 acetylation, resulting in increased expression of genes involved in AML development. On a translational level both murine as well as human AML cells with low expression of GFI1 are resistant to standard epigenetic therapy. We show that treatment with histone acetyltransferase inhibitors might be a novel treatment approach for low Gfi1-expressing blast cells. GFI1 has a dose dependent role in myeloid malignancies and is a biomarker for therapeutic intervention. We used microarrays to detail the global programme of gene expression in bone marrow cells of Nup98HoxD13 leucemic mice and identified distinct classes of up-regulated genes during this process. Bone marrow cells of leukemic mice (from KI & KD Nup98HoxD13 mice) were collected for RNA extraction and hybridization on Affymetrix microarrays. We sought to obtain homogeneous populations of leukemic cell population, so we took samples of mice which had the same age.

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Identification of GFI1 target genes in human lung adenocarcinoma cell line A549 [ChIP-seq]

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