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Series GSE134053 Query DataSets for GSE134053
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
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)
GSM3934820 I53SOHT-H3K27me3Inp
GSM3934822 PARETA-H2A119UbInp
BioProject PRJNA553568
SRA SRP213935

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

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
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Raw data are available in SRA
Processed data provided as supplementary file

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