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PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression

ABSTRACT: PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression

PROVIDER: PRJNA1018917 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26112929_1.fastq.gz	Fastqsanger.gz
	SRR26112929_2.fastq.gz	Fastqsanger.gz
	SRR26112930_1.fastq.gz	Fastqsanger.gz
	SRR26112930_2.fastq.gz	Fastqsanger.gz
	SRR26110231_1.fastq.gz	Fastqsanger.gz

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PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [CUT&Run]

Project description:SNCAIP duplication may promote Group 4 medulloblastoma via induction of PRDM6, a poorly characterized member of the PRDF1 and RIZ1 homology domain-containing (PRDM) family of transcription factors. Here, we investigated the function of PRDM6 in human hindbrain neuroepithelial stem cells and tested PRDM6 as a driver of Group 4 medulloblastoma. We report that human PRDM6 localizes predominantly to the nucleus, where it causes widespread repression of chromatin accessibility and complex alterations of gene expression patterns. Genome-wide mapping of PRDM6 binding reveals that PRDM6 binds to chromatin regions marked by histone H3 lysine 27 trimethylation that are located within, or proximal to, genes. Moreover, we show that PRDM6 expression in neuroepithelial stem cells promotes medulloblastoma. Surprisingly, medulloblastomas derived from PRDM6-expressing neuroepithelial stem cells match human Group 3, but not Group 4, medulloblastoma. We conclude that PRDM6 expression has oncogenic potential but is insufficient to drive Group 4 medulloblastoma from neuroepithelial stem cells. We propose that both PRDM6 and additional factors, such as specific cell-of-origin features, are required for Group 4 medulloblastoma. Given the lack of PRDM6 expression in normal tissues and its oncogenic potential shown here, we suggest that PRDM6 inhibition may have therapeutic value in PRDM6-expressing medulloblastomas.

2024-07-17 | GSE243557 | GEO

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [ATAC-Seq]

2024-07-17 | GSE243556 | GEO

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [RNA-Seq]

2024-07-17 | GSE243554 | GEO

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [RNA-Seq]

Project description:PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [RNA-Seq]

| PRJNA1018921 | ENA

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [ATAC-Seq]

Project description:PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [ATAC-Seq]

| PRJNA1018924 | ENA

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [CUT&Run]

Project description:PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [CUT&Run]

| PRJNA1018925 | ENA

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-07-17 | GSE243558 | GEO

Investigation of the physiological functions of PRDM6

Project description:PRDM6 belongs to the PRDM family of transcriptional repressors that all contain a PR domain and Zinc finger domains. Prdm6 has transcriptional repressor activity. Prdm6 may regulate factors that are involved in the differentiation / proliferation of smooth muscle cells, promoting proliferation. PRDM6 knockouts are embryonic lethal around 12.0 dpc knockout embryos eventually develop edema: cardiovascular defect vascularization defect in the yolk sac: dysorganized angiogenesis 6 homozygote samples (yolk sacs), age 10.5 days, hybridized against a pool of of 6 wildtype samples in 12 replicates including 6 dye swap experiments.

2010-05-22 | E-GEOD-9065 | biostudies-arrayexpress

Investigation of the physiological functions of PRDM6

Project description:PRDM6 belongs to the PRDM family of transcriptional repressors that all contain a PR domain and Zinc finger domains. Prdm6 has transcriptional repressor activity. Prdm6 may regulate factors that are involved in the differentiation / proliferation of smooth muscle cells, promoting proliferation. PRDM6 knockouts are embryonic lethal around 12.0 dpc knockout embryos eventually develop edema: cardiovascular defect vascularization defect in the yolk sac: dysorganized angiogenesis Keywords: cDNA array, yolk sac, murine embryo E10.5

2008-04-01 | GSE9065 | GEO

Determining the PRDM6 genomic binding sites in primary outflow tract smooth muscle cells

Project description:Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for PRDM6 in primary outflow tract smooth muscle cells overexpressing FLAG taggged PRDM6

2023-04-12 | GSE221094 | GEO

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