GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE193019 Query DataSets for GSE193019
Status Public on Nov 08, 2022
Title (RNA-seq) USP7 regulates the ncPRC1 Polycomb axis to stimulate genomic H2AK119ub1 deposition uncoupled from H3K27me3
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Ubiquitin-specific protease 7 (USP7) has been implicated in cancer progression and neurodevelopment. However, its molecular targets remain poorly characterized. We combined quantitative proteomics, transcriptomics, and epigenomics to define the core USP7 network. Our multi-omics analysis reveals USP7 as a control hub that links genome regulation, tumor suppression, and histone H2A ubiquitylation (H2AK119ub1) by noncanonical Polycomb-repressive complexes (ncPRC1s). USP7 strongly stabilizes ncPRC1.6 and, to a lesser extent, ncPRC1.1. Moreover, USP7 represses expression of AUTS2, which suppresses H2A ubiquitylation by ncPRC1.3/5. Collectively, these USP7 activities promote the genomic deposition of H2AK119ub1 by ncPRC1, especially at transcriptionally repressed loci. Notably, USP7-dependent changes in H2AK119ub1 levels are uncoupled from H3K27me3. Even complete loss of the PRC1 catalytic core and H2AK119ub1 has only a limited effect on H3K27me3. Besides defining the USP7 regulome, our results reveal that H2AK119ub1 dosage is largely disconnected from H3K27me3.
Overall design RNA-seq analysis of wild-type or USP7-KO DLD1 cells. DOX treatment for 1, 3, or 9 days was carried out to rescue USP7 expression.
contributor: Erasmus Genomics CTU
Contributor(s) Sijm A, Atlasi Y, van der Knaap JA, van der Meer JW, Chalkley GE, Bezstarosti K, Dekkers DH, Doff WA, Ozgur Z, van IJcken WF, Demmers JA, Verrijzer CP
Citation(s) 36332031
Submission date Jan 04, 2022
Last update date Nov 09, 2022
Contact name Yaser Atlasi
Organization name Queen's University Belfast
Department patrick G Johnston Centre for Cancer research
Street address Lisburn Road
City Belfast
ZIP/Postal code BT9 7AE
Country United Kingdom
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (15)
GSM5770718 DLD1-WT-Rep1
GSM5770719 DLD1-WT-Rep2
GSM5770720 DLD1-WT-Rep3
This SubSeries is part of SuperSeries:
GSE193020 USP7 regulates the ncPRC1 Polycomb axis to stimulate genomic H2AK119ub1 deposition uncoupled from H3K27me3
BioProject PRJNA794141

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
GSE193019_RAW.tar 1.2 Gb (http)(custom) TAR (of BW)
GSE193019_deseq2_results.xlsx 9.9 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap