GSE75973   Details

GSE Accession GSE75973
Title DNA methylation oscillations at CpG poor enhancers in primed embryonic stem cells [PBAT Bisfulfite-seq]
Submission Date 2015-12-14
Last Update Date 2018-06-26
Pubmed ID 30031774
Experiment Type Methylation profiling by high throughput sequencing
Contributor Steffen,,Rulands; Heather,J,Lee; Stephen,J,Clark; Christof Angermueller; Sebastien,A,Smallwood; Felix Krueger; Gavin Kelsey; Oliver Stegle; Benjamin,D,Simons; Wolf Reik
Contact Name Felix Krueger
Contact E-mail felix.krueger@babraham.ac.uk
Organization Name The Babraham Institute
Country United Kingdom
Organism Mus musculus
Organism ID
Organism Synonym mouse;house mouse
Summary Mouse embryonic stem cells (ESCs) primed for differentiation display dynamic heterogeneity characterised by stochastic switching between transcriptional states, and recent advances have highlighted the heterogeneous and dynamic nature of DNA methylation in these. Using single cell sequencing we report global oscillations in ESC DNA methylation that affect particularly CpG poor regions including distal enhancers. These oscillations are dependent on DNA methylation turnover by Dnmt3 and Tet enzymes and influence the probability of transcriptional state switching. Our observations suggest that regulated DNA methylation heterogeneity may contribute to lineage priming in cells poised for differentiation.
Overall Design 2i_release: A long-term culture of 2i/Lif mouse embryonic stem cells were transferred to serum/Lif culture conditions and triplicate samples were collected over a time course of 30 time points.; ; NanogGFP: NanogGFP (TNGA) mouse embryonic stem cells were sorted into Nanog-high and Nanog-low subpopulations. After 2 days of recapturing, a second cell sort was performed yielding 4 populations of cells. Data are from triplicate experiments.
Platform ID
Timepoint Count 30
Timepoints gse: [Timepoints, 30]
Disease tetanus;
thrombocytopenia-absent radius syndrome;
lupus erythematosus;
congenital disorder;
thrombocytopenia
Disease ID 11338;
14699;
8857;
759;
1588