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Series GSE166362 Query DataSets for GSE166362
Status Public on Jan 02, 2023
Title Dynamic antagonism between key repressive pathways maintains the placental epigenome
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Other
Summary DNA and Histone-3 Lysine 27 methylation typically function as repressive modifications and operate within distinct genomic compartments. In mammals, the majority of the genome is kept in a DNA methylated state, whereas the Polycomb Repressive Complexes regulate the CpG-rich promoters of developmental genes. In contrast to this general framework, the extraembryonic lineages display noncanonical, globally intermediate DNA methylation levels that includes disruption of local Polycomb domains. To better understand this unusual landscape’s molecular properties, we genetically and chemically perturbed major epigenetic pathways in mouse Trophoblast Stem Cells (TSCs). We find that the extraembryonic epigenome reflects ongoing and dynamic de novo methyltransferase recruitment, which is continuously antagonized by Polycomb to maintain intermediate, locally disordered methylation. Despite its disorganized appearance, our data point to a highly controlled equilibrium between counteracting repressors within extraembryonic cells, one that can seemingly persist indefinitely without bistable features typically seen for embryonic forms of epigenetic regulation.
 
Overall design Profiling of DNA methylation, gene expression, genome-wide chromatin interactions and histone binding in trophoblast stem cells.
 
Contributor(s) Weigert R, Hetzel S, Bailly N, Haggerty C, Ilik IA, Kwong Yung PY, Navarro C, Bolondi A, Sampath Kumar A, Anania C, Brändl B, Meierhofer D, Lupiáñez DG, Müller F, Aktas T, Elsässer SJ, Kretzmer H, Smith ZD, Meissner A
Citation(s) 37024684
Submission date Feb 08, 2021
Last update date Apr 08, 2023
Contact name Sara Hetzel
E-mail(s) hetzel@molgen.mpg.de
Organization name Max Planck Institute for Molecular Genetics
Department Genome Regulation
Lab Meissner Lab
Street address Ihnestraße 63
City Berlin
ZIP/Postal code 14195
Country Germany
 
Platforms (2)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL26624 PromethION (Mus musculus)
Samples (264)
GSM5906080 RRBS_ESC_WT_single_cell_sorted_cl10
GSM5906081 RRBS_ESC_WT_single_cell_sorted_cl11
GSM5906082 RRBS_ESC_WT_single_cell_sorted_cl12
This SuperSeries is composed of the following SubSeries:
GSE196976 Dynamic antagonism between key repressive pathways maintains the placental epigenome (RRBS)
GSE196977 Dynamic antagonism between key repressive pathways maintains the placental epigenome (WGBS)
GSE198075 Dynamic antagonism between key repressive pathways maintains the placental epigenome (MINUTE-ChIP)
Relations
BioProject PRJNA700618

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE166362_RAW.tar 38.5 Gb (http)(custom) TAR (of BW, H5, TSV)
SRA Run SelectorHelp

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