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

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

PROVIDER: PRJNA637513 | ENA |

REPOSITORIES: ENA

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Similar Datasets

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 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

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

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

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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

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.

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AP-MS analysis using Flp-In-293 cells stably expressing HDAC1 with C-terminal HaloTag

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EPIC-HPS

Project description:EPIC-HPS

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EPIC: Software Toolkit for Elution Profile-Based Inference of Protein Complexes

Project description:Heteromeric protein complexes are key macromolecular machines of the cell, but their description remains incomplete. We previously reported an experimental strategy for global characterization of native protein assemblies based on chromatographic fractionation of biological extracts coupled to precision mass spectrometry analysis (CF/MS), but the resulting data can be challenging to process and interpret. Here, we describe EPIC (Elution Profile-based Inference of Complexes), a software toolkit for automated scoring of CF/MS data for large-scale determination of high-confidence physical interaction networks and macromolecular assemblies from diverse biological specimens. As a case study, we used EPIC to map the global interactome of Caenorhabditis elegans, defining 590 putative worm protein complexes linked to diverse biological processes, including assemblies unique to nematodes. The EPIC software is freely available as a Jupyter notebook packaged in a Docker container (https://hub.docker.com/r/baderlab/bio-epic/), and the open source code is available via GitHub (https://github.com/BaderLab/EPIC).

2019-07-16 | PXD011182 | Pride

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Project description:Genome-wide DNA methylation profiling using the Illumina EPIC 850k DNA methylation BeadChip array on 8 pools of human genomic DNA from whole blood for 190 individuals age matched at 4 time points; ~4, ~28, ~63, & ~78 years.

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