|
| Status |
Public on Dec 26, 2019 |
| Title |
Histone H2AK119 Mono-Ubiquitination is Essential for Polycomb-Mediated Transcriptional Repression |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The major function of Polycomb group proteins (PcG) is to maintain transcriptional repression to preserve cellular identity. This is exerted by two distinct repressive complexes, PRC1 and PRC2, that modify histones by depositing H2AK119ub1 and H3K27me3, respectively. Both complexes are essential for development and are deregulated in several types of human tumors. PRC1 and PRC2 exist in different variants and show a complex regulatory cross-talk. However, the contribution that H2AK119ub1 plays in mediating PcG repressive functions remains largely controversial. Coupling an inducible system with the expression of a fully catalytic inactive RING1B mutant, we demonstrated that H2AK119ub1 deposition is essential to maintain PcG-target genes repressed in ESC. Loss of H2AK119ub1 induced a rapid displacement of PRC2 activity and a loss of H3K27me3 deposition. This affected both PRC2.1 and PRC2.2 variants and further correlated with a strong displacement and destabilization of canonical PRC1. Finally, we find that variant PRC1 forms can sense H2AK119ub1 deposition, which contributes to their stabilization specifically at sites where this modification is highly enriched. Overall our data place H2AK119ub1 deposition as central hub that mount PcG repressive machineries to preserve cell transcriptional identit
|
| |
|
| Overall design |
This data series consists of ChIPseq and RNAseq samples. RNAseq samples consist of 2 biological replicates. For all ChIP-seq samples the E14 input has been used to call peaks. The inputs for H3K27me3 and H2AK119ub1 are used to correct the variability introduced in the quantification of the chromatin before adding the spike-in (see methods of the paper).
|
| |
|
| Contributor(s) |
Fernande-Perez D, Pasini D |
| Citation(s) |
31883952 |
| Submission date |
Jul 09, 2019 |
| Last update date |
Mar 02, 2020 |
| Contact name |
Diego Pasini |
| E-mail(s) |
lab.pasini@gmail.com
|
| Organization name |
European Institute of Oncology
|
| Street address |
Via Adamello, 16
|
| City |
Milano |
| ZIP/Postal code |
20139 |
| Country |
Italy |
| |
|
| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (99)
|
|
| Relations |
| BioProject |
PRJNA553568 |
| SRA |
SRP213935 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE134053_Eed_OHT-vs-Eed_ETA_diffexp_log2fc1.5_pval0.05.tsv.gz |
802.7 Kb |
(ftp)(http) |
TSV |
| GSE134053_Normalized_counts.tsv.gz |
1.1 Mb |
(ftp)(http) |
TSV |
| GSE134053_Normalized_counts_Eed_samples.tsv.gz |
438.2 Kb |
(ftp)(http) |
TSV |
| GSE134053_RAW.tar |
6.3 Mb |
(http)(custom) |
TAR (of BED) |
| GSE134053_Raw_counts.tsv.gz |
925.2 Kb |
(ftp)(http) |
TSV |
| GSE134053_Ring1_ETA-vs-I53S_ETA_diffexp_log2fc1.5_pval0.05.tsv.gz |
642.2 Kb |
(ftp)(http) |
TSV |
| GSE134053_Ring1_ETA-vs-WT_ETA_diffexp_log2fc1.5_pval0.05.tsv.gz |
640.0 Kb |
(ftp)(http) |
TSV |
| GSE134053_Ring1_OHT-vs-I53S_OHT_diffexp_log2fc1.5_pval0.05.tsv.gz |
657.5 Kb |
(ftp)(http) |
TSV |
| GSE134053_Ring1_OHT-vs-Ring1_ETA_diffexp_log2fc1.5_pval0.05.tsv.gz |
834.8 Kb |
(ftp)(http) |
TSV |
| GSE134053_Ring1_OHT-vs-WT_OHT_diffexp_log2fc1.5_pval0.05.tsv.gz |
799.9 Kb |
(ftp)(http) |
TSV |
| GSE134053_WT_OHT-vs-WT_ETA_diffexp_log2fc1.5_pval0.05.tsv.gz |
728.0 Kb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
Less...
More...