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E-TABM-670

ABSTRACT: Transcription profiling of mouse embryonic stem cell line CGR8 grown in presence of Leukemia Inhibitory Factor and treated with trichostatin A

PROVIDER: E-TABM-670 | ExpressionAtlas | 2014-10-10

REPOSITORIES: ExpressionAtlas

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			Action	DRS
	E-TABM-670-analysis-methods.tsv	Tabular
	E-TABM-670-atlasExperimentSummary.Rdata	Rdata
	E-TABM-670-configuration.xml	Xml
	E-TABM-670-percentile-ranks.tsv	Tabular
	E-TABM-670.condensed-sdrf.tsv	Tabular

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Expression data from differentiating murine embryonic stem cells

2015-05-21 | GSE54242 | GEO

Transcription profiling of mouse embryonic stem cell line CGR8 grown in presence of Leukemia Inhibitory Factor and treated with trichostatin A

2009-07-10 | E-TABM-670 | biostudies-arrayexpress

E-TABM-667

Project description:Transcription profiling of mouse embryonic stem cell line CGR8 treated with Leukemia Inhibitory Factor (LIF) to identify LIF-dependent genes and early differentiation markers

2015-11-02 | E-TABM-667 | ExpressionAtlas

Gene expression profile of mouse embryonic stem cells (D3-pOCT-mESC) grown in low concentrations of nitric oxide

Project description:In order to identify the genes regulated in mouse embryonic stem cells (mESC) by the effect of low concentrations of nitric oxide (NO), we analysed the transcriptome of cells treated with NO and compared it to those of cells cultured in the absence of leukemia inhibitory factor (LIF), and in the presence of LIF. We used the cell line D3-pOct4, which carries the enhanced Green Fluorescence Protein gene (eGFP) under the control of the Oct-4 promotor. This line is continuously maintained in the undifferentiated state in the presence of LIF, in comparison with the wild type line .

2008-10-17 | GSE13235 | GEO

Transcription profiling of mouse embryonic stem cell line CGR8 treated with Leukemia Inhibitory Factor (LIF) to identify LIF-dependent genes and early differentiation markers

Project description:This experiment is part of the FunGenES project (FunGenES - Functional Genomics in Embryonic Stem Cells partially funded by the 6th Framework Programme of the European Union, http://www.fungenes.org). The experiment was conducted at the University Bordeaux 2 (CNRS UMR 5164). The purpose of the experiment was to identify the LIF-dependent genes and early differentiation markers in mouse ES cells. Leukemia Inhibitory Factor (LIF) is a member of the Interleukin-6 (IL-6) family of cytokines, which displays pleiotropic functions, depending on both cell maturity and cell type. LIF maintains ES cell pluripotency and is a critical cell survival factor in myocytes. Materials and methods: CGR8 cell line was used.6 cell conditions tested: + LIF, reinduced 25 min with serum + LIF reinduced 25 min with serum and LIF 500pM - LIF for 24h, reinduced 25 min with serum - LIF for 24h, reinduced 25 min with serum and LIF 500pM- LIF for 48h, reinduced 25 min with serum - LIF for 48h, reinduced 25 min with serum and LIF 500pM. Relationships between samples. 5 independent preparations of mRNA have been done on five different CGR8 passages. Culture conditions: Monolayer adherent cells. RNA isolation method: Qiagen column

2009-07-10 | E-TABM-667 | biostudies-arrayexpress

Expression data from differentiating murine embryonic stem cells

Project description:Various substances have been reported to enhance the cardiac differentiation of embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs). Ascorbic Acid had a cardiogenic effect in mESC CGR8 cell line. Transcriptome of AA-treated CGR8 ESCs did not reveal any significant changes in gene expression as compared to untreated cells. We performed a global gene expression analysis to better understand the mechanism of Ascorbic acid-induced cardiac differentiation. Differentiating murine embryonic stem cells from CGR cell line were selected at stages of Day 0 (undifferentiated cells), Day 2, Day 3 and Day 5 of differentiation for RNA extraction and hybridization on Affymetrix microarray chip. Samples were collected in 3 biological replicate and were either treated with Ascorbic acid or nontreated (control group). Only those samples were processed for further analysis in which we were able to confirm that AA significantly enhanced cardiac differentiation efficiency at later stages (day 8 and 12) of differentiation by assessing the number of beating EBs in control and AA-treated groups. Cardiac efficiency was evaluated later on this study. But samples that were analyzed by microarray analysis was limited till Day 5. We did not perform whole genome study for these later days of differentiation ( day 8 or 12).

2015-05-21 | E-GEOD-54242 | biostudies-arrayexpress

Transcription profiling by array of mouse wild type and E-cadherin knockout embryonic stem cells grown with or without cytokine leukemia inhibitory factor

Project description:We previously observed that E-cadherin knockout embryonic stem cells do not differentiate in the absence of the cytokine leukemia inhibitory factor (LIF) (Soncin et al., 2009, Stem Cells 27 p2069-2080). This experiment was designed to compare the transcription profile of E-cadherin KO ES cells cultured in the presence and absence of LIF. We also compared E-cadherin KO ES cells with wild type D3 ES cells grown in the presence of LIF.

2011-06-19 | E-MEXP-2836 | biostudies-arrayexpress

Transcription profiling of mouse embryonic stem cells (D3-pOCT-mESC) grown in low concentrations of nitric oxide

Project description:In order to identify the genes regulated in mouse embryonic stem cells by the effect of low concentrations of nitric oxide (NO), we analysed the transcriptome of cells treated with NO and compared it to those of cells cultured in the absence of leukemia inhibitory factor (LIF), and in the presence of LIF. We used the cell line D3-pOct4, which carries the enhanced Green Fluorescence Protein gene (eGFP) under the control of the Oct-4 promotor. This line is continuously maintained in the undifferentiated state in comparison with the wild type line in the presence of LIF. Experiment Overall Design: D3-pOct4 cells cultured in the presence of 1000 U/ml of LIF, in the absence of LIF, and in the absence of LIF with 2uM of diethylenetriamine nitric oxide adduct (DETA)/NO were grown for 7 days, maintaining the conditions of the treatment everyday. DETA-NO (Sigma) was used as donor of nitric oxide. RNA was extracted and analyzed by Bioanalyzer of Agilent. The cDNA microarray chip used was Mouse Genome 430_2.0 (Affymetrix) and the data were analyzed with GeneChip Operating System v1.4.0.036 using global scaling as the normalization method.

2008-10-26 | E-GEOD-13235 | biostudies-arrayexpress

Transcription profiling of mouse ES cell derived brachyury+ (T) cell specific transcriptome

Project description:This experiment is part of the FunGenES project (FunGenES - Functional Genomics in Embryonic Stem Cells partially funded by the 6th Framework Programme of the European Union, http://www.fungenes.org). The experiment was conducted at University of Cologne, Cologne, Germany. Goal of the experiment was an analysis the transcriptome of the ES-cell derived pure T-brachyury expressing CGR8 cells. Materials and methods: On day 0, EBs were made from T-brachyury ES (CGR8) cell line by hanging drop protocol. On second day, the hanging drop EBs were transferred into suspension. On third day, the EBs were treated or untreated with puromycin at a concentration of 5ug/ml for 2 days. On 5th day, the medium was changed and added medium with or without puromycin at a concentration of 2 ug/ml for 1 day. On day 6th , RNA was isolated from EBs treated or untreated with puromycin for affymetrix analysis.

2010-05-12 | E-TABM-716 | biostudies-arrayexpress

Transcription profiling of mouse embryonic stem cell line CGR8 transfected with control shRNA and shRNA against HP1g in two different developmental stages

Project description:The work was done one mouse embryonic stem cells. <br>Three independent experiments were carried out. <br>Two cell lines were used. They derive from the same cell line (CGR8). ShCTR is a cell line transduced with a control shRNA. ShN2 is a cell line transduced with a shRNA against HP1g. <br>The different stage of these cell lines were analysed : proliferating undifferentiated cells (ES) and differentiated cells (EB36h).<br>

2010-07-02 | E-MEXP-2238 | biostudies-arrayexpress

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