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| Status |
Public on Jan 02, 2023 |
| Title |
Dynamic antagonism between key repressive pathways maintains the placental epigenome (ChIP-BS-seq) |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| 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.
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| Overall design |
H3K27me3 ChIP followed by bisulfite sequencing in wild type mouse embryonic and trophoblast stem cells.
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| 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 |
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| Submission date |
Nov 02, 2022 |
| Last update date |
Apr 08, 2023 |
| Contact name |
Sara Hetzel |
| E-mail(s) |
hetzel@molgen.mpg.de
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| Organization name |
Max Planck Institute for Molecular Genetics
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| Department |
Genome Regulation
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| Lab |
Meissner Lab
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| Street address |
Ihnestraße 63
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| City |
Berlin |
| ZIP/Postal code |
14195 |
| Country |
Germany |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE166362 |
Dynamic antagonism between key repressive pathways maintains the placental epigenome |
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| Relations |
| BioProject |
PRJNA896995 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE217138_ChIP-BS-seq_ESC_WT_H3K27me3_merged_DNAme_mm10.bw |
36.4 Mb |
(ftp)(http) |
BW |
| GSE217138_ChIP-BS-seq_ESC_WT_H3K27me3_merged_RPGC_mm10_input_subtracted.bw |
360.9 Mb |
(ftp)(http) |
BW |
| GSE217138_ChIP-BS-seq_TSC1_WT_H3K27me3_merged_DNAme_mm10.bw |
38.3 Mb |
(ftp)(http) |
BW |
| GSE217138_ChIP-BS-seq_TSC1_WT_H3K27me3_merged_RPGC_mm10_input_subtracted.bw |
351.3 Mb |
(ftp)(http) |
BW |
| GSE217138_RAW.tar |
2.1 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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