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Epigenome analyses of HCT116 cells stably expressing UHRF1 mutant [Illumina EPIC]

ABSTRACT: Epigenome analyses of HCT116 cells stably expressing UHRF1 mutant [Illumina EPIC]

PROVIDER: PRJNA637514 | ENA |

REPOSITORIES: ENA

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Epigenome analyses of HCT116 cells stably expressing UHRF1 mutant [Illumina EPIC]

Project description:UHRF1 is a key regulator of DNA methylation maintenance. In this study, we investigated whether acetylation of UHRF1 affects its hemimethylated DNA binding affinity and alters genome-wide DNA methylation pattern. We show that cells with mutation in K490 of UHRF1 have distinct methylation profile versus wildtype UHRF1 expressing cells.

2020-06-06 | GSE151862 | GEO

Epigenome analysis of HDAC1 stably knocked down HCT116 cell [Illumina EPIC]

Project description:UHRF1 is a key regulator of DNA methylation maintenance. In this study, we investigated whether acetylation of UHRF1 affects its hemimethylated DNA binding affinity and alters genome-wide DNA methylation pattern. We observed that acetylation of UHRF1 is regulated by HDAC1 and PCAF. We investigated DNA methylation profile of HDAC1 depleted HCT116 cell with control cell.

2020-06-06 | GSE151861 | GEO

Epigenome analysis of HDAC1 stably knocked down HCT116 cell [Illumina EPIC]

Project description:Epigenome analysis of HDAC1 stably knocked down HCT116 cell [Illumina EPIC]

| PRJNA637513 | ENA

Epigenome analysis of HDAC1 stably knocked down HCT116 cells and HCT116 cells stably expressing UHRF1 mutant

Project description:Epigenome analysis of HDAC1 stably knocked down HCT116 cells and HCT116 cells stably expressing UHRF1 mutant

| PRJNA637512 | ENA

DNA methylation analysis of HCT116 after knockdown and rescue of UHRF1

Project description:In HCT116 colorectal cancer cells, UHRF1 was knocked down by shRNA (puromycin) while simultaneously transduced with wildtype or mutant UHRF1 (blasticidin) or NDI1 (- control) followed by dual antibiotic selection. DNA was analyzed 11 days after viral transduction.

2019-08-14 | GSE135802 | GEO

DNA methylation analysis of HCT116 after knockdown of LIG1, UHRF1, or luciferase (control)

Project description:In HCT116 colorectal cancer cells, UHRF1, LIG1, or luciferase was knocked down by shRNA followed by selection with puromycin for 2 days. DNA was analyzed 12 days after viral transduction.

2020-03-26 | GSE147518 | GEO

Expression data from HeLa cell lines stably expressing shRNA targeting ctrl or UHRF1

Project description:We used microarrays to explore the expression profile from cells expressing wild type and UHRF1 S674A mutant. HeLa cells expressing UHRF1 WT and S674A mutant showed similar gene expression pattern without significant affecting the transcription of DNA repari genes. UHRF1 was depleted in HeLa cells by shRNA treatment. Total RNA was purified and used to determine the global gene transcription profiles by microarray assays. The UHRF1-related genes expression profiles were compared among control cells, UHRF1-depleted cells, UHRF1 WT reconstituting cells and UHRF1 S674A mutant reconstituting cells.

2016-01-05 | E-GEOD-73751 | biostudies-arrayexpress

PHD finger recognition of unmodified histone H3R2 links UHRF1 to regulation of euchromatic gene expression

Project description:Histone methylation occurs on both lysine and arginine residues and its dynamic regulation plays a critical role in chromatin biology. Here we identify the UHRF1 PHD domain (PHDUHRF1), an important regulator of DNA CpG methylation, as an unanticipated histone H3 unmodified arginine 2 (H3R2)-recognition modality. This conclusion is based on binding studies and co-crystal structures of the PHDUHRF1 bound to histone H3 peptides, where the guanidinium group of unmodified R2 forms an extensive intermolecular hydrogen bond network, with methylation of H3R2, but not H3K4 or H3K9, disrupting complex formation. We have identified direct target genes of UHRF1 from microarray and ChIP studies. Importantly, we show that UHRF1’s ability to repress its direct target gene expression is dependent on PHDUHRF1 binding to unmodified H3R2, thereby demonstrating the functional importance of this recognition event and supporting the potential for crosstalk between histone arginine methylation and UHRF1 function. UHRF1 protein was depleted in HCT116 cells by shRNA treatment. Total RNA was purified and used to determine the global gene transcription profiles by microarray assays. The UHRF1-regulated genes were identified by comparing the gene expression profiles of control and UHRF1-depleted HCT116 cells.

2011-07-07 | E-GEOD-30478 | biostudies-arrayexpress

Epigenome analysis of HDAC1 stably knocked down HCT116 cells and HCT116 cells stably expressing UHRF1 mutant

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-06-06 | GSE151865 | GEO

Human colon cancer cell line HCT116 stably transfected with EPXH2 was constructed and analyzed by RNA sequencing.

Project description:We analyzed the molecular mechanism of regulation of EPHX2 on colon cancer by constructing colon cancer cell line HCT116 stably transfected with EPHX2.

2022-03-02 | GSE197535 | GEO

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