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ChIP-seq analysis of human non-transformed breast epithelial cell lines MCF10A with ARID1A knockdown

ABSTRACT: ChIP-seq analysis of human non-transformed breast epithelial cell lines MCF10A with ARID1A knockdown

PROVIDER: PRJNA716617 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14045269_1.fastq.gz	Fastqsanger.gz
	SRR14045269_2.fastq.gz	Fastqsanger.gz
	SRR14045270_1.fastq.gz	Fastqsanger.gz
	SRR14045270_2.fastq.gz	Fastqsanger.gz
	SRR14045271_1.fastq.gz	Fastqsanger.gz

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ChIP-seq analysis of human non-transformed breast epithelial cell lines MCF10A with ARID1A knockdown

Project description:We performed ChIP-Seq analysis for the binding of ARID1A abundance genome-wide. These studies were performed in MCF10A, the human non-transformed breast epithelial cell line, with ARID1A knockdown and control group.

2022-12-31 | GSE169442 | GEO

Gene expression changes in human non-transformed breast epithelial cell lines with ARID1A knockdown.

Project description:We measured changes in gene expression using human non-transformed breast epithelial cell lines with ARID1A knockdown.

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Gene expression changes in human non-transformed breast epithelial cell lines with ARID1A knockdown.

Project description:Gene expression changes in human non-transformed breast epithelial cell lines with ARID1A knockdown.

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Expression analysis of genes responding to ARID1A knockdown

Project description:Illumina array was employed to analyze the genes whose expression are altered when ARID1A gene is downregulated by shRNA in normal ovarian surface epithelial cells OSE4 and IOSE80pc. This leads to discovery of p53-regulated genes such as p21 and SMAD3. ARID1A knockdown in OSE4 and IOSE80pc

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Gene expression data ARID1A knockdown OE33 cells versus mock OE33 cells

Project description:A nonsense mutation in ARID1A was identified by next generation sequencing in non-dysplastic Barrett's esophagus [BE] tissue and esophageal adenocarcinoma [EAC] tissue of a patient diagnosed with EAC. Immunohistochemistry performed on an independent archival cohort demonstrated ARID1A protein loss in 0% (0/76), 4.9% (2/40), 14.3% (4/28), 16.0% (8/50), and 12.2% (12/98) of normal squamous epithelium, BE, low-, high-grade dysplasia, and EAC tissues, respectively. Enhanced cell growth, proliferation and invasion were observed upon ARID1A knockdown in EAC cells. ARID1A was knocked down in OE33 cells (Sample MS_1 and MS_3) using on-TARGET smartpool ARID1A siRNA. At the same time, OE33 cells were transfected with a non-targeting siRNA, and these experiments (Samples MS_2 and MS_4) functioned as mock controls. Cells were harvested after 48 hours and total RNA was extracted using the Rneasy kit (Qiagen) Aim Affymetrix Human PrimeView Gene Expression Array : to determine the downstream effectors of ARID1A that are likely to contribute to the oncogenic phenotype caused by ARID1A down-regulation. Two biological replicates of each condition (2x ARID1A knockdown, and 2x Mock) were used for the microarray experiment.

2012-05-31 | E-GEOD-38380 | biostudies-arrayexpress

Study of SPEN knockdown in MCF10A cells

Project description:In this experiment, we knocked down the expression of Split Ends (SPEN), a gene that we found was involved in the regulation of primary cilia formation, in MCF10A cells, to evaluate its effects on transcription. Split Ends (SPEN) is a transcriptional coregulator that have formerly identified as a tumour suppressor gene in ER-positive breast cancers. We expect the knockdown of SPEN in MCF10A cells to be accompanied with the down-regulation of genes involved in ciliogenesis as we observed that SPEN knockdown decreases primary cilia formation in those cells. We chose MCF10A cells because they harbour lots of primary cilia and therefore represent a good model to study the effect of SPEN on primary cilia formation.

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mRNA-seq of MCF10A USP22 knockdown cells

Project description:This analysis identifies genes which are affected in MCF10A cells upon siRNA-mediated USP22 knockdown

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mRNA-seq of MCF10A USP22 knockdown cells

Project description:mRNA-seq of MCF10A USP22 knockdown cells

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mRNA-seq for HCT116 Parental and ARID1A knockdown cells, mRNA-seq for DLD1 Parental, ARID1A knockdown and ARID1A knockout cells, mRNA-seq for COLO320DM Parental and ARID1A knockdown and ARID1A knockout cells

Project description:mRNA-seq for HCT116 Parental and ARID1A knockdown cells, mRNA-seq for DLD1 Parental, ARID1A knockdown and ARID1A knockout cells, mRNA-seq for COLO320DM Parental and ARID1A knockdown and ARID1A knockout cells

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Project description:The study identifies genes that are regulated by the loss of the chromatin remodeller subunit ARID1A in colorectal cancer cell lines. This gene is frequently mutated in colorectal cancer.

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