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GenomicsGenome-wide distribution of 5-formylcytosine in ES cells is associated with transcription and depends on TDG
Methylation of cytosine in DNA (5mC) is an important epigenetic mark that is involved in the regulation of genome function. During early embryonic development in mammals, the DNA methylation landscape is dynamically reprogrammed in part through active demethylation. Recent advances have identified k...
ORGANISM(S): Mus musculus 
2012-08-17 | E-GEOD-40148 | biostudies-arrayexpress
GenomicsFGF Signaling Inhibition in ESCs Drives Rapid Genome-wide Demethylation to the Epigenetic Ground State of Pluripotency
Genome-wide erasure of DNA methylation takes place in primordial germ cells (PGCs) and early embryos but the signalling mechanisms that induce reprogramming are unknown. Here we show that inhibition of Erk1/2 and Gsk3bM-BM- signalling in mouse embryonic stem cells (ESCs) by small molecule inhibitors...
ORGANISM(S): Mus musculus 
2013-06-27 | E-GEOD-42923 | biostudies-arrayexpress
GenomicsGenome-wide bisulfite sequencing in zygotes identifies demethylation targets and maps the contribution of TET3 oxidation
Fertilization triggers a global erasure of 5-methylcytosine from paternal DNA as part of extensive epigenetic reprogramming during the transition from gametic specialization to totipotency. This active removal has been shown to involve oxidation by TET3, but the targeting of this pathway and the wid...
ORGANISM(S): Mus musculus 
2014-12-22 | E-GEOD-63417 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation to determine DNA methylation of mouse pluripotent and differentiated tissues
ChIP-on-chip analysis using a methylation specific antibody was performed on a series of pluripotent and differentiated tissues.
ORGANISM(S): Mus musculus 
2008-06-27 | E-TABM-476 | biostudies-arrayexpress
GenomicsResetting Transcription Factor Control Circuitry Towards Ground State Pluripotency In Human
Current human pluripotent stem cells lack the transcription factor circuitry that governs the ground state of mouse embryonic stem cells (ESC). Here we report that short-term expression of two components, NANOG and KLF2, is sufficient to ignite other elements of the network and reset the human pluri...
ORGANISM(S): Homo sapiens 
2014-09-10 | E-GEOD-60945 | biostudies-arrayexpress
TranscriptomicsMicroarray expression profiling of conventional and reset human pluripotent stem cells
Human pluripotent cells were reset to ground state pluripotency by transient overexpression of NANOG and KLF2 and subsequent inhibition of ERK and protein kinase C. Transcriptional profiling of H9 parental and clonal lines, and induced pluripotent stem cells derived from adult fibroblast and adipose...
ORGANISM(S): Homo sapiens 
2014-09-10 | E-MTAB-2856 | biostudies-arrayexpress
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