Similar studies for GEO DataSets (Select 200024563) - GEO DataSets

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Items: 20

Select item 2000245631.

Transcriptional Activation by Oct4 Is Sufficient for the Maintenance and Induction of Pluripotency

(Submitter supplied) Oct4 is an essential regulator of embryonic stem (ES) cell pluripotency in vivo and in vitro, as well as a key mediator of the reprogramming of somatic cells to form induced pluriopotent stem (iPS) cells. It is not known whether activation and/or repression of specific genes by Oct4 is relevant to these functions. Here we show that fusion proteins containing the coding sequence of Oct4 or Xlpou91 (the Xenopus homologue of Oct4) fused to activating regions, but not those fused to repressing regions, behave as Oct4, suppressing differentiation and promoting maintenance of undifferentiated phenotypes in vivo and in vitro. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6867
18 Samples

Download data: TXT

Series

Accession:: GSE24563

ID:: 200024563

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000503942.

A mesodermal factor, T (Brachyury), specifies mouse germ cell fate by directly activating germline determinants

(Submitter supplied) Germ cells ensure reproduction and heredity in metazoans. Primordial germ cells (PGCs) in mice are induced in pluripotent epiblasts by BMP4 and WNT3, yet their mechanism of action remains unclear. Here, using in vitro PGC specification system, we show that WNT3 induces many transcription factors associated with mesoderm in epiblast-like cells (EpiLCs) through b-CATENIN. Among these, T (BRACHYURY), a classical and conserved mesodermal factor, was essential for robust activation of Blimp1 and Prdm14, two of the germline determinants. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL15907
9 Samples

Download data: BED, TDF, WIG

Series

Accession:: GSE50394

ID:: 200050394

PubMed Similar studies SRA Run Selector

Select item 2000496893.

A Mesodermal Factor, T (BRACHYURY), specifies mouse germ cell fate by directly activating germline determinants.

(Submitter supplied) The germ cell lineage ensures reproduction and heredity in metazoans. Primordial germ cells (PGCs) in mice are induced in pluripotent epiblast cells by BMP4 and WNT3, yet their mechanism of action remains elusive. Here, using in vitro PGC specification system, we show that WNT3, but not BMP4, induces many transcription factors associated with mesoderm in epiblast-like cells (EpiLCs) through beta-CATENIN. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Dataset:: GDS4870
Platform:: GPL1261
23 Samples

Download data: CEL

Series

Accession:: GSE49689

ID:: 200049689

Select item 48704.

An in vitro primordial germ cell specification system: time course

Analysis of Wnt3+/+ and Wnt3-/- embryonic stem cell-induced, pluripotent epiblast-like cells stimulated with cytokines (BMP4, Wnt3a, or BMP4+Wnt3a) for up to 36 hrs to induce primordial germ cells (PGCs). Results provide insight into molecular mechanisms by which BMP4/WNT3 signaling specifies PGCs.

Organism:: Mus musculus

Type:: Expression profiling by array, count, 2 genotype/variation, 4 protocol, 4 time sets

Platform:: GPL1261
Series:: GSE49689
23 Samples

Download data: CEL

DataSet

Accession:: GDS4870

ID:: 4870

Select item 2000282705.

Distinct developmental ground states of different epiblast stem cell lines determine pluripotency features

(Submitter supplied) Epiblast stem cells (EpiSC) are pluripotent stem cells derived from mouse postimplantation embryos between E5.5 to E7.5, a time window in which gastrulation commences. Therefore, EpiSC represent a valuable tool for studying mammalian postimplantation development in vitro. Beyond their pluripotent features, EpiSC can also be reprogrammed into a mouse embryonic stem cell-like (mESC) state. Published reports showed that EpiSC reversion requires transcription factor overexpression, while others suggest that applying stringent mESC culture conditions alone was sufficient to revert EpiSC to mESC-like cells. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6885
7 Samples

Download data: TXT

Series

Accession:: GSE28270

ID:: 200028270

Select item 2000274556.

Wnt and Tcf3-mediated regulation of gene expression in mouse embryonic stem cells

(Submitter supplied) The observation that Tcf3 (MGI name: Tcf7l1) bound the same genes as core stem cell transcription factors, Oct4 (MGI name:Pou5f1), Sox2 and Nanog, revealed a potentially important aspect of the poorly understood mechanism whereby Wnts stimulate self renewal of pluripotent mouse embryonic stem (ES) cells. Although the conventional view of Tcf proteins as the β-catenin-binding effectors of Wnt signaling suggested Tcf3 should activate target genes in response to Wnts, here we show that Wnt3a and Tcf3 effectively antagonize each other’s effects on gene expression. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
12 Samples

Download data: CEL

Series

Accession:: GSE27455

ID:: 200027455

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000655977.

Genome-wide identification and analysis of mRNA and miRNA expression in MEFs, ESCs, and iPSCs

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by array; Non-coding RNA profiling by array

Platforms:: GPL15216 GPL6887
24 Samples

Download data: IDAT, TXT

Series

Accession:: GSE65597

ID:: 200065597

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000655968.

Genome-wide identification and analysis of microRNA expression in MEFs, ESCs, and iPSCs

(Submitter supplied) Microarray analysis of miRNA—Two micrograms of total RNA was extended at the 3′ terminus with a poly(A) tail using poly(A) polymerase. An oligonucleotide tag was then ligated to the poly(A) tail for later fluorescent dye staining. Hybridization was performed overnight on a µParaflo microfluidic chip using a microcirculation pump (Atactic Technologies). On the microfluidic chip, each detection probe consisted of a chemically modified nucleotide coding segment complementary to the target microRNA (miRBase, http://mirbase.org) and a spacer segment of polyethylene glycol to extend the coding segment away from the substrate. more...

Organism:: Mus musculus

Type:: Non-coding RNA profiling by array

Platform:: GPL15216
12 Samples

Download data: TXT

Series

Accession:: GSE65596

ID:: 200065596

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000655639.

Genome-wide identification and analysis of mRNA expression in MEFs, ESCs, and iPSCs

(Submitter supplied) Microarray analysis of mRNA—RNA was prepared from ESCs (CGR8 and CJ7), MEFs, and iPSCs with a PureLink RNA Mini Kit (Life Technologies). Initial sample quality control was performed with a Nanodrop 8000 (Thermo Scientific). RNA samples with an optical density (OD) 260/280 ratio and an OD 260/230 ratio of 1.8 or higher were used. Samples with an RNA Integrity Number of 7.5 or greater measured with a LabChip Caliper GX (Perkin Elmer) were applied to an Illumina TotalPrep-96 RNA Amplification Kit (Life Technologies) to generate biotinylated and amplified RNA. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6887
12 Samples

Download data: IDAT, TXT

Series

Accession:: GSE65563

ID:: 200065563

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20005847610.

β-catenin regulates primitive streak induction through collaborative interactions with SMAD2/3 and OCT4

(Submitter supplied) Canonical Wnt and Nodal signaling are both required for induction of the primitive streak (PS), which guides organization of the early embryo. The Wnt effector β-catenin is thought to function in these early lineage specification decisions via transcriptional activation of Nodal signaling. Here, we demonstrate a broader role for β-catenin in PS formation by analyzing its genome-wide binding in a human embryonic stem cell model of PS induction. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL11154
6 Samples

Download data: TXT, WIG

Series

Accession:: GSE58476

ID:: 200058476

PubMed Similar studies SRA Run Selector

Select item 20001664611.

Targets of the transcription factor Brachyury in differentiating mouse ES cells

(Submitter supplied) Brachyury (or T) is expressed in the primitive streak, tailbud and notochord of the early mouse embryo (Herrmann et al., 1990; Wilkinson et al., 1990). It plays a key role in early development: mouse embryos lacking functional Brachyury protein fail to gastrulate properly, do not form a differentiated notochord, and lack structures posterior to somite seven (Chesley, 1935; Dobrovolskaïa-Zavadskaïa, 1927; Naiche et al., 2005; Wilson et al., 1995; Wilson et al., 1993; Yanagisawa et al., 1981) We apply a ChIP-on-chip approach to identify targets of Brachyury during mouse ES cell differentiation. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by genome tiling array

Platforms:: GPL4129 GPL4128
4 Samples

Download data: TXT

Series

Accession:: GSE16646

ID:: 200016646

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004757812.

Xenopus laevis embryos and animal caps: Control vs PouV morpholino

(Submitter supplied) Transcriptional profiling of Xenopus laevis embryos and ectoderm (animal caps) comparing embryos injected with control morpholino with embryos injected with the morpholino mixture PVD2, which knocks down all three Xenopus PouV proteins. Whole embryos (WE) or animal caps (AC) were collected at late blastula (9) or early gastrula (10) stages from Control and PVD2 morphants.

Organism:: Xenopus laevis

Type:: Expression profiling by array

Platform:: GPL11258
16 Samples

Download data: TXT

Series

Accession:: GSE47578

ID:: 200047578

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003541513.

UTX regulated genes in mouse embryonic stem cells

(Submitter supplied) UTX gene is localized on the X chromosome, identified as a demethylase on histone H3 lysine 27.

Organism:: Mus musculus

Type:: Expression profiling by array

Dataset:: GDS5465
Platform:: GPL1261
4 Samples

Download data: CEL

Series

Accession:: GSE35415

ID:: 200035415

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 546514.

UTX deficiency effect on embryonic stem cells

Analysis of embryonic stem cells lacking UTX. UTX is a histone H3K27 demethylase that belongs to the the family of JmjC domain-containing proteins. Results provide insight into the role of UTX in embryonic stem cell differentiation.

Organism:: Mus musculus

Type:: Expression profiling by array, count, 2 genotype/variation sets

Platform:: GPL1261
Series:: GSE35415
4 Samples

Download data: CEL

DataSet

Accession:: GDS5465

ID:: 5465

PubMed Full text in PMC Similar studies GEO Profiles Analyze DataSet

Select item 20012846615.

Eomes and Brachyury control pluripotency exit and germ-layer segregation by changing the chromatin state

(Submitter supplied) We aimed to elucidate molecular mechanisms of first lineage decision in the mouse pluripotent epiblast that segregates mesoderm and endoderm (ME) from neuroectoderm (NE). By analyzing mouse embryonic stem cells (ESCs) and embryos deficient for two T-box (Tbx) transcription factors Eomes and Brachyury we demonstrate that this process is controlled by the changes in the chromatin accessibility of ME gene enhancers and activation of the target genes, but also direct repression the opposing pluripotency and NE gene programs.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19057
82 Samples

Download data: BED, BIGWIG, TXT, XLSX

Series

Accession:: GSE128466

ID:: 200128466

PubMed Similar studies SRA Run Selector

Select item 20001995516.

Expression data comparing wild-type and spt mutant zebrafish tissues at two developmental time points.

(Submitter supplied) Mesoderm differentiation in zebrafish relies on a complex interaction between transcription factors and signaling pathways. Tbx16 is a t-box transcription factor involved in this interaction. Here, we examine downstream targets of tbx16 in the intermediate mesoderm at the 4/5-somite stage and tail mesoderm at the 21-somite stage by comparing wild-type tissues with tissues from the tbx16 mutant, spadetail (spt).

Organism:: Danio rerio

Type:: Expression profiling by array

Platform:: GPL1319
11 Samples

Download data: CEL

Series

Accession:: GSE19955

ID:: 200019955

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004359717.

Gene regulatory networks mediating canonical Wnt signal directed control of pluripotency and differentiation in embryo stem cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL6246 GPL9250
26 Samples

Download data: BED, CEL, XLS

Series

Accession:: GSE43597

ID:: 200043597

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004356518.

ChIP-seq analysis of β-catenin in mouse embryonic stem cells treated with GSK3 inhibitor CHIR99021 under serum+LIF standard condition.

(Submitter supplied) The objective of this study was to identify the direct target genes of β-catenin acting downstream of canonical Wnt signaling in mouse embryonic stem cells (ESCs).Canonical Wnt signaling supports the pluripotency of mouse ESCs but also promotes differentiation of early mammalian cell lineages. To explain these paradoxical observations, we explored the gene regulatory networks at play. Canonical Wnt signaling is intertwined with the pluripotency network comprising Nanog, Oct4, and Sox2 in mouse ESCs. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL9250
5 Samples

Download data: BED, XLS

Series

Accession:: GSE43565

ID:: 200043565

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20004342119.

Transcriptional responses to GSK3 inhibitor and MEK inhibitor on 2i-adapted mouse embryonic stem cells

(Submitter supplied) The objective of this study was to investigate the roles of GSK3 inhibitor CHIR99021 and MEK inhibitor PD0325901 on 2i-adapted mouse embryonic stem cells (ESCs) in serum-free conditions.Canonical Wnt signaling supports the pluripotency of mouse ESCs but also promotes differentiation of early mammalian cell lineages. To explain these paradoxical observations, we explored the gene regulatory networks at play. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6246
15 Samples

Download data: CEL

Series

Accession:: GSE43421

ID:: 200043421

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004342020.

Transcriptional responses to Wnt pathway stimulation in mouse embryonic stem cells cultured in serum+LIF condition

(Submitter supplied) The objective of this study was to identify genes regulated by canonical Wnt signaling in mouse embryonic stem cells (ESCs).Canonical Wnt signaling supports the pluripotency of mouse ESCs but also promotes differentiation of early mammalian cell lineages. To explain these paradoxical observations, we explored the gene regulatory networks at play. Canonical Wnt signaling is intertwined with the pluripotency network comprising Nanog, Oct4, and Sox2 in mouse ESCs. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6246
6 Samples

Download data: CEL

Series

Accession:: GSE43420

ID:: 200043420

PubMed Full text in PMC Similar studies Analyze with GEO2R

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