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Links from GEO DataSets

Items: 20

1.

Prdm14

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6887
12 Samples
Download data
Series
Accession:
GSE45509
ID:
200045509
2.

Genome-wide identification of genes differentially expressed between control and Prdm14 overexpressing ES cells grown in serum conditions.

(Submitter supplied) Analysis of Prdm14 function in mouse embryonic stem cells. Prdm14 null and overexpressing ES cells were generated and analyzed by microarray, immunoflurescence, flow cytometry, ELISA, qPCR in different culture conditions.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6887
6 Samples
Download data: TXT
Series
Accession:
GSE45508
ID:
200045508
3.

Genome-wide identification of genes differentially expressed between wild-type and Prdm14-deficient ES cells grown in 2i culture conditions.

(Submitter supplied) Analysis of Prdm14 function in mouse embryonic stem cells. Prdm14 null and overexpressing ES cells were generated and analyzed by microarray, immunoflurescence, flow cytometry, ELISA, qPCR in different culture conditions.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6887
6 Samples
Download data: TXT
Series
Accession:
GSE45507
ID:
200045507
4.

NANOG alone induces germ cells in primed epiblast in vitro by activation of enhancers

(Submitter supplied) Nanog, a core pluripotency factor in the inner cell mass of blastocysts, is also expressed in unipotent primordial germ cells (PGC) in mice1, where its precise role is yet unclear2-4. We investigated this in an in vitro model, where naïve pluripotent embryonic stem cells (ESCs) cultured in bFGF/ActivinA develop as epiblast-like cells (EpiLCs), and gain competence for PGC-like fate5. Consequently, bone morphogenetic protein (BMP4), or ectopic expression of key germline transcription factors Prdm1/ Prdm14/ Tfap2c, directly induce PGC-like cells (PGCLCs) in EpiLCs, but not in ESCs6-8. more...
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL6887
18 Samples
Download data: BEDGRAPH
Series
Accession:
GSE71933
ID:
200071933
5.

NANOG alone induces germ cells in primed epiblast in vitro by activation of enhancers [ChIP-seq]

(Submitter supplied) Nanog, a core pluripotency factor in the inner cell mass of blastocysts, is also expressed in unipotent primordial germ cells (PGCs) in mice, where its precise role is yet unclear. We investigated this in an in vitro model, in which naive pluripotent embryonic stem (ES) cells cultured in basic fibroblast growth factor (bFGF) and activin A develop as epiblast-like cells (EpiLCs) and gain competence for a PGC-like fate. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
12 Samples
Download data: BEDGRAPH
Series
Accession:
GSE71932
ID:
200071932
6.

NANOG alone induces germ cells in primed epiblast in vitro by activation of enhancers [microarray]

(Submitter supplied) Nanog, a core pluripotency factor in the inner cell mass of blastocysts, is also expressed in unipotent primordial germ cells (PGC) in mice1, where its precise role is yet unclear2-4. We investigated this in an in vitro model, where naïve pluripotent embryonic stem cells (ESCs) cultured in bFGF/ActivinA develop as epiblast-like cells (EpiLCs), and gain competence for PGC-like fate5. Consequently, bone morphogenetic protein (BMP4), or ectopic expression of key germline transcription factors Prdm1/ Prdm14/ Tfap2c, directly induce PGC-like cells (PGCLCs) in EpiLCs, but not in ESCs6-8. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6887
6 Samples
Download data: TXT
Series
Accession:
GSE61924
ID:
200061924
7.

PRDM14 drives OCT3/4 recruitment via active demethylation in the transition from primed to naïve pluripotency

(Submitter supplied) Primordial germ cells (PGCs) are specified from epiblast cells in mice. Genes associated with naïve pluripotency are transiently repressed in the transition from inner cell mass (ICM) to epiblast cells, followed by their upregulation soon after PGC specification. However, the molecular mechanisms underlying the reactivation of pluripotency genes are poorly characterized. Here, we exploited in vitro differentiation of epiblast-like cells (EpiLCs) from embryonic stem cells (ESCs) to elucidate the molecular and epigenetic functions of PR domain-containing 14 (PRDM14). more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL11180
6 Samples
Download data: CEL
Series
Accession:
GSE77622
ID:
200077622
8.

Investigations on the role of Blimp1 in pluripotency and reprogramming

(Submitter supplied) Blimp1 (Prdm1), the key determinant of primordial germ cells (PGC), plays a combinatorial role with Prdm14 during PGC specification from postimplantation epiblast cells. They together initiate epigenetic reprogramming in early germ cells towards an underlying pluripotent state, which is equivalent to embryonic stem cells (ESC). Whereas Prdm14 alone can promote reprogramming and is important for the propagation of the pluripotent state, it is not known if Blimp1 is similarly involved. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6887
23 Samples
Download data: TXT
Series
Accession:
GSE35983
ID:
200035983
9.

Induction of the mouse germ cell fate by transcription factors in vitro

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
52 Samples
Download data: CEL
Series
Accession:
GSE46855
ID:
200046855
10.

Induction of the mouse germ cell fate by transcription factors in vitro [exp2]

(Submitter supplied) The germ cell lineage ensures the continuity of life through the generation of male and female gametes, which unite to form a totipotent zygote. We have established a culture system that recapitulates the mouse germ-cell specification pathway: Using cytokines, embryonic stem cells (ESCs)/induced pluripotent stem cells (iPSCs) are induced into epiblast-like cells (EpiLCs) and then into primordial germ cell-like cells (PGCLCs) with capacity both for spermatogenesis and oogenesis, creating an opportunity for understanding and regulating mammalian germ cell development in both sexes in vitro. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
20 Samples
Download data: CEL
Series
Accession:
GSE46854
ID:
200046854
11.

Induction of the mouse germ cell fate by transcription factors in vitro [exp1]

(Submitter supplied) The germ cell lineage ensures the continuity of life through the generation of male and female gametes, which unite to form a totipotent zygote. We have established a culture system that recapitulates the mouse germ-cell specification pathway: Using cytokines, embryonic stem cells (ESCs)/induced pluripotent stem cells (iPSCs) are induced into epiblast-like cells (EpiLCs) and then into primordial germ cell-like cells (PGCLCs) with capacity both for spermatogenesis and oogenesis, creating an opportunity for understanding and regulating mammalian germ cell development in both sexes in vitro. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
32 Samples
Download data: CEL
Series
Accession:
GSE43775
ID:
200043775
12.

A Co-repressor CBFA2T2 regulates pluripotency and germline development

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL11154 GPL13112
18 Samples
Download data: BW, XLSX
Series
Accession:
GSE71676
ID:
200071676
13.

A Co-repressor CBFA2T2 regulates pluripotency and germline development [ChIP-seq]

(Submitter supplied) In this experiment, we sought to determine the relative distribution of CBFA2T2, PRDM14, RING1B POU5F1 and SUZ12
Organism:
Homo sapiens; Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL11154 GPL13112
9 Samples
Download data: BW
Series
Accession:
GSE71675
ID:
200071675
14.

A Co-repressor CBFA2T2 regulates pluripotency and germline development [RNA-seq]

(Submitter supplied) In this experiment, we sought to determine how PRDM14 and CBFA2T2 regulate the transcriptome of mouse embryonic stem cells
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
9 Samples
Download data: XLSX
Series
Accession:
GSE71674
ID:
200071674
15.

PRDM14 promotes active DNA demethylation through the Ten-eleven translocation (TET)–mediated base excision repair pathway in embryonic stem cells

(Submitter supplied) Ten-eleven translocation (TET) proteins oxidize 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytsosine (5fC), and 5-carboxylcytosine (5caC). 5fC/5caC can be excised and repaired by the base excision repair (BER) pathway, implicating 5mC oxidation in active DNA demethylation. Genome-wide DNA methylation is erased in the transition from metastable states to ground state of embryonic stem cells (ESCs) and in migrating primordial germ cells (PGCs), while some resistant regions become demethylated only in gonadal PGCs. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL11180
4 Samples
Download data: CEL
Series
Accession:
GSE52598
ID:
200052598
16.

Naïve pluripotency is associated with global DNA hypomethylation

(Submitter supplied) Naive pluripotent embryonic stem cells (ESCs) and embryonic germ cells (EGCs) are derived from the preimplantation epiblast and primordial germ cells (PGCs), respectively. We investigated whether differences exist between ESCs and EGCs, in view of their distinct developmental origins. PGCs are programmed to undergo global DNA demethylation; however, we find that EGCs and ESCs exhibit equivalent global DNA methylation levels. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6246
22 Samples
Download data: CEL
Series
Accession:
GSE43398
ID:
200043398
17.

BMP4 Resets Primed to Naive Pluripotency by Reprogramming Chromatin Accessibility [ChIP-Seq]

(Submitter supplied) BMP4 regulates a plethora of developmental processes including dorsal-ventral axis and neural patterning. Here we report that BMP4 reconfigures nuclear archi-tecture during primed to naive transition (PNT). We first established a robust BMP4 driven PNT and shown by ATAC- and RNA-seq that it orchestrates the chromatin accessibility dynamics during PNT. Among the loci opened early by BMP4, we identified Zbtb7a/b as new targets that contribute to drive PNT. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21273
2 Samples
Download data: BED, BW
Series
Accession:
GSE146653
ID:
200146653
18.

BMP4 Resets Primed to Naive Pluripotency by Reprogramming Chromatin Accessibility

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL21273 GPL19057
17 Samples
Download data: BED, BW
Series
Accession:
GSE122937
ID:
200122937
19.

BMP4 Resets Primed to Naive Pluripotency by Reprogramming Chromatin Accessibility [RNA-Seq]

(Submitter supplied) Mouse naive and primed pluripotent stem cells, ESC and EpiSC, represent two distinct stages of pluripotency. Here we report that BMP4 drives primed to naive transition or PNT by reprogramming chromatin accessibility. ATAC-seq reveals that a short pulse of BMP4 triggers EpiSCs to close 26409 and open 6428 loci to reach an intermediate state that continue to open 18744 and close 7042 loci under 2iL until reaching a naive state, following with a dramatic reactivation of the silenced X chromosome. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
6 Samples
Download data: TSV
Series
Accession:
GSE122936
ID:
200122936
20.

BMP4 Resets Primed to Naive Pluripotency by Reprogramming Chromatin Accessibility [ATAC-Seq]

(Submitter supplied) Mouse naive and primed pluripotent stem cells, ESC and EpiSC, represent two distinct stages of pluripotency. Here we report that BMP4 drives primed to naive transition or PNT by reprogramming chromatin accessibility. ATAC-seq reveals that a short pulse of BMP4 triggers EpiSCs to close 26409 and open 6428 loci to reach an intermediate state that continue to open 18744 and close 7042 loci under 2iL until reaching a naive state, following with a dramatic reactivation of the silenced X chromosome. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19057
9 Samples
Download data: BW
Series
Accession:
GSE122935
ID:
200122935
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