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TranscriptomicsTranscription profiling of mouse embryonic stem cells and primordial germ cells to identify genes up-regulated in pluripotent cells
Understanding the transcriptional regulation of pluripotent cells is of fundamental interest and will greatly inform efforts aimed at directing differentiation of embryonic stem (ES) cells or reprogramming somatic cells. We first analyzed the transcriptional profiles of mouse ES cells and primordial...
ORGANISM(S): Mus musculus 
2007-07-28 | E-MEXP-1158 | biostudies-arrayexpress
TranscriptomicsTranscriptional profiling of mouse inner cell mass of the blastocyst, primordial germ cells and cultured pluripotent stem cells
Pluripotent stem cells are derived from culture of early embryos or the germline, and can be induced by reprogramming of somatic cells. Barriers to reprogramming are expected to exist that stabilize the differentiated state and have tumor suppression functions. However, we have a limited understandi...
ORGANISM(S): Mus musculus 
2012-01-31 | E-GEOD-35416 | biostudies-arrayexpress
GenomicsPolycomb-like 3 is a PRC2 component that supports embryonic stem cell self-renewal
Polycomb repressive complex 2 (PRC2) trimethylates lysine 27 of histone H3 (H3K27me3), which regulates gene expression and controls diverse biological transitions in development, embryonic stem cell (ESC) differentiation, and cancer. Here we show that Polycomb-like 3 (Pcl3) is a component of PRC2 t...
ORGANISM(S): Mus musculus 
2012-03-15 | E-GEOD-28325 | biostudies-arrayexpress
ProteomicsChd1 regulates repair of promoter-proximal DNA breaks to sustain hypertranscription in embryonic stem cells
Stem and progenitor cells undergo a global elevation of nascent transcription, or hypertranscription, during key developmental transitions involving rapid cell proliferation. The chromatin remodeler Chd1 binds to RNA Pol I and II genes and is required for hypertranscription in embryonic stem (ES) ce...
ORGANISM(S): Mus musculus (Mouse) 
2021-06-14 | PXD024604 | Pride
Mouse stem cell orbitrap immunoprecipitation mass spectrometry 
TranscriptomicsExpression data from Chd1-deficient mouse ES cells (E14 cell lines) and genome-wide binding of Chd1 in parental ES cells
We used microarrays to study the effect of Chd1 loss of function in mouse ES cells. We used ChIP-chip to analyze genome-wide binding of Chd1 in normal ES cells. Mouse Embryonic Stem (ES) cells were infected with a lentiviral vector (pSicoR-mCherry) for expression of a shRNA against Chd1 and GFP (as ...
ORGANISM(S): Mus musculus 
2009-08-13 | E-GEOD-16462 | biostudies-arrayexpress
GenomicsBivalent Chromatin Marks Developmental Regulatory Genes in the Mouse Embryonic Germline in Vivo
We developed a ChIP protocol for the analysis of histone marks using less than 10,000 cells per IP, and used it to investigate the chromatin state of E11.5 mouse primordial germ cells (PGCs). A genome-wide ChIP-Seq analysis of E11.5 PGCs revealed a distribution of H3K4me3/H3K27me3 bivalent domains h...
ORGANISM(S): Mus musculus 
2013-05-30 | E-GEOD-46396 | biostudies-arrayexpress
GenomicsVitamin C induces Tet-dependent DNA demethylation in ES cells to promote a blastocyst-like methylome [MeDIP-Seq]
DNA methylation is a heritable epigenetic modification involved in gene silencing, imprinting, and the suppression of retrotransposons. Global DNA demethylation occurs in the early embryo and the germline and may be mediated by Tet (ten-eleven-translocation) enzymes, which convert 5-methylcytosine (...
ORGANISM(S): Mus musculus 
2013-06-30 | E-GEOD-46402 | biostudies-arrayexpress
TranscriptomicsVitamin C induces Tet-dependent DNA demethylation in ES cells to promote a blastocyst-like methylome [Affymetrix]
DNA methylation is a heritable epigenetic modification involved in gene silencing, imprinting, and the suppression of retrotransposons. Global DNA demethylation occurs in the early embryo and the germline and may be mediated by Tet (ten-eleven-translocation) enzymes, which convert 5-methylcytosine (...
ORGANISM(S): Mus musculus 
2013-06-30 | E-GEOD-46319 | biostudies-arrayexpress
GenomicsAnalysis of binding of the transcriptional factor Nrf1 in mouse embryonic stem cells
Analysis of binding of the transcriptional factor Nrf1 in mouse embryonic stem cells by ChIP-Seq
ORGANISM(S): Mus musculus 
2017-12-15 | E-MTAB-3475 | biostudies-arrayexpress
TranscriptomicsIncomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells
Human induced pluripotent stem (iPS) cells are remarkably similar to embryonic stem (ES) cells, but recent reports indicate that there may be important differences between them. We carried out a systematic comparison of human iPS cells generated from hepatocytes (representative of endoderm), skin fi...
ORGANISM(S): Homo sapiens 
2011-04-17 | E-GEOD-23034 | biostudies-arrayexpress
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