Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

GRO-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

ABSTRACT: GRO-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

PROVIDER: PRJNA512524 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

GRO-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

Project description:We performed a CRISPR-based functional genetic screen targeting CTCF binding elements (CBEs) located in the vicinity of ERα-bound enhancers. The screen identified four functional CBEs whose targeting resulted in a marked negative effect on the proliferation of MCF-7 cells (ERα-positive cells) but no significant effect on MDA-MB-231 (ERα-negative cells) cells. Here, we carried out GRO-seq analysis on MCF-7 cells induced with an sgRNA vector targeting one of the hits detected by the screen: sgRNA_1118, as well as non-targeting sgRNA and sg1830 as control.

2019-11-01 | GSE124572 | GEO

RNA-Seq and GRO-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

Project description:RNA-Seq and GRO-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

| PRJNA512518 | ENA

RNA-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

Project description:RNA-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

| PRJNA512525 | ENA

RNA-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

Project description:We performed a CRISPR-based functional genetic screen targeting CTCF binding elements (CBEs) located in the vicinity of ERα-bound enhancers. The screen identified four functional CBEs whose targeting resulted in a marked negative effect on the proliferation of MCF-7 cells (ERα-positive cells) but no significant effect on MDA-MB-231 (ERα-negative cells) cells. We then carried out RNA-seq analysis on MCF-7 cells induced with sgRNA vectors targeting these four CBEs: sgRNA_1118, sgRNA_1659, sgRNA_680 and sgRNA_810, as well as non-targeting sgRNA as control.

2019-11-01 | GSE124573 | GEO

GRO-seq analysis of MCF7 cells

Project description:We used GRO-seq to examine RNA transcription rates in MCF7 cells.

2017-06-13 | GSE96718 | GEO

RNA-Seq and GRO-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

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

2019-11-01 | GSE124575 | GEO

GRO-seq from HCT116, MCF7 and SJSA cell lines treated with DMSO and Nutlin

Project description:To identify loci with transcriptionally engaged RNA polymerase, we performed GRO-seq analysis of colorectal carcinoma cell line HCT116, breast carcinoma line MCF7, and osteosarcoma line SJSA treated with MDM2 inhibitor Nutlin.

2017-08-22 | GSE86165 | GEO

ChIP-chip of H3K4Me1, H3K4Me3, H3K4Ac, H3K9Ac, H3K9Me2, H3K27Me3, CTCF and HP1a in MCF7 breast cancer cells

Project description:We report the high-throughput profiling of histone modifications, CTCF and HP1a binding sites in MCF7 breast cancer cells. ChIP-chip experiments were performed using the Agilent Human Genome CGH Microarray 1x1M. Regulatory markers H3K4Me1, H3K4Me3, H3K4Ac, H3K9Ac, CTCF are known to be positively correlated with gene expression, and H3K9Me2, H3K27Me3 and HP1a are negative markers. Together with MCF7 methylation data, we showed hypomethylated promoters are significantly enriched with positive regulatory elements, and lacks repressive markers.

2015-02-25 | E-MTAB-1935 | biostudies-arrayexpress

GRO-seq on MCF7 and MDA-MB-231 breast cancer cells

Project description:GRO-seq on MCF7 and MDA-MB-231 breast cancer cells

| PRJNA578047 | ENA

CTCF modulates Estrogen Receptor function through specific chromatin and nuclear matrix interactions [ChIP-seq]

Project description:In our work we used high-throughput sequencing methods to get insight in the role of CTCF in ER-mediated gene regulation in luminal breast cancer cells. After assessing genome-wide binding of CTCF, ER, FOXA1 and Lamin B in MCF7 cells treated with estrogen for different time points, we could correlate the interaction to the chromatin with estrogen-induced de novo transcription (from GRO-seq data) and loop formation (from ChIA-PET, Fullwood et al., 2009). We observed that CTCF binding correlates with ER-mediated transcription and its depletion can affect ER-ER loop formation and subsequently gene expression.

2016-12-10 | GSE85106 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data