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ChIP-Seq of Dazl in mouse embryonic stem cells

ABSTRACT: ChIP-Seq of Dazl in mouse embryonic stem cells

PROVIDER: PRJEB39230 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR4318781_1.fastq.gz	Fastqsanger.gz
	ERR4318781_2.fastq.gz	Fastqsanger.gz
	ERR4318782_1.fastq.gz	Fastqsanger.gz
	ERR4318782_2.fastq.gz	Fastqsanger.gz
	ERR4318783_1.fastq.gz	Fastqsanger.gz

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ChIP-Seq of Dazl in mouse embryonic stem cells

Project description:We developed a method to identify chromatin-associated proteins by mass spectrometry. In addition to many known DNA and chromatin-binders, we identified several RNA-binding proteins in the chromatin composition of mouse embryonic stem cells (mESC). Interestingly, we found Dazl as a RBP that specifically binds to chromatin in mESC grown in 2iL condition. So far, Dazl was reported as a RBP that regulates the stability of transcripts in cytoplasm. To identify the binding sites of Dazl on the genome, we carried out a ChIP-seq experiment. As a result, we detected about 1300 reproducible Dazl ChIP-seq peaks. Interestingly, most of the peaks are located close to the transcription start sites of developmental and pluripotency-related genes.

2020-12-25 | E-MTAB-9302 | biostudies-arrayexpress

iCLIP of Dazl in mouse embryonic stem cells

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H3K9me3 ChIP Sequencing of Tex19.1-/- Mouse Embryonic Stem Cells [ChIP-seq]

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iCLIP of Dazl in mouse embryonic stem cells

Project description:In this experiment we would like to identify the binding sites of Dazl on the transcriptome of mESCs. To do that, we carried out an iCLIP experiment using mESCs grown in 2iL condition.

2020-12-25 | E-MTAB-9332 | biostudies-arrayexpress

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Project description:Human embryonic stem cells (cell line HS401) were transfected with piggyBac over expression constructs for germ cell specific RNA binding proteins, Nanos homolog 3 (NANOS3) or Deleted in azoospermia-like (DAZL). Cells transfected with a construct without open reading frame (MOCK), were used as control. Biological triplicates from separate transfections were used for analysis. Total RNAs were ribodepleted and sequenced on one lane on an Illumina HiSeq2500 with a 2x101 setup in HighOutput mode.

2016-10-19 | E-MTAB-3849 | biostudies-arrayexpress

Mouse embryonic stem cell phosphoproteome

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Project description:TAF4 directed immunoprecipitation of the the Pre-initiation complex from mouse embryonic stem cells with or without depletion of TATA-box binding protein (TBP).

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An RNA-interacting protein network regulates pluripotency in mammalian primordial germ cells (Dazl testis RNA-IP)

Project description:Primordial germ cells (PGCs) are the embryonic precursors to egg and sperm. When removed from the embryonic gonad, PGCs can give rise to embryonic germ cell lines (EGs), pluripotent stem cells that display most of the characteristics of embryonic stem cells (ESCs) including the ability to form teratomas and to contribute to chimera formation. In mice, EG cells can be derived between E8.5 up to E12.5 of embryonic development, at which point the PGCs undergo sexual differentiation and in the male transition into unipotent gonocytes. Dazl, a germ cell-specific RNA-binding protein, is specifically expressed in developing PGCs and is required for proper germ cell development. Dazl knockout mice are infertile, but the molecular mechanisms underlying this phenotype are still unknown. Here we demonstrate that Dazl localizes in granular structures in mammalian PGCs but not in ESCs. We demonstrate Dazl plays a central role in a large mRNA/protein interactive network that includes members of Fragile-X family RNA-binding proteins. We demonstrate that Dazl and Fxr1 play a central role in these granules and directly regulate the translation of specific core pluripotency factors, including Sox2 and Suz12. RNA species interacting specifically with Dazl in juvenile testicular germ cells were identified by RNA-IP microarray analysis. This dataset contains data from native RNA-IPs from P14 Dazl-GFP transgenic mouse testes. Native RNA-IP (anti-V5 and anti-PABP1) experiments from juvenile testicular germ cells expressing Dazl-GFP-V5. Input Total RNA and mock IP with normal mouse IgG were used as controls. Control and IP-enriched RNA samples were analyzed by Agilent Mouse Whole Genome 4X44K one-color microarrays. Two replicates for each condition were done.

2013-12-31 | E-GEOD-39545 | biostudies-arrayexpress

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