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ChIP-seq of AP4 binding in human colorectal cancer cells DLD-1.

ABSTRACT: In order to comprehensively identify genes directly regulated by AP4, a genome-wide chromatin-immunoprecipitation analysis (ChIP) followed by next generation sequencing (ChIP-seq) was performed after activation of a conditional AP4 allele in DLD-1 cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE46935 | GEO | 2013/05/31

SECONDARY ACCESSION(S): PRJNA203207

REPOSITORIES: GEO

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ChIP-seq of AP4 binding in human colorectal cancer cells DLD-1.

Project description:In order to comprehensively identify genes directly regulated by AP4, a genome-wide chromatin-immunoprecipitation analysis (ChIP) followed by next generation sequencing (ChIP-seq) was performed after activation of a conditional AP4 allele in DLD-1 cells. One DLD-1 Sample was sequenced.

2013-05-31 | E-GEOD-46935 | biostudies-arrayexpress

Ectopic expression of AP4 in human colorectal cancer cells DLD-1 for different times

Project description:To characterize the transcriptome of the transcription factor AP4 DLD-1 cells were infected with AP4 coding viruses for different periods of time. Adenovirus amplification and purification was performed as previously described (He et al., 1998). The minimal amount of virus needed to reach more than 90% infection efficiency was determined by monitoring GFP signals with fluorescence microscopy. DLD-1 cells were infected in serum-free medium with adenovirus for 3 hours. After removal an equal amount of medium containing 20% FBS was added. This study contains 17 Samples with different conditions/samples: Triplicates of non-infected cells as a control, triplicates of infections with an AP4 coding viruses harvested after 12, 24 and 48 hours and, as an additional control, a triplicate of cells infected with a GFP expressing virus harvested after 24 hours and unicates harvested after 12 and 48 hours.

2013-05-31 | E-GEOD-46578 | biostudies-arrayexpress

Ectopic expression of AP4 in human colorectal cancer cells DLD-1 for different times

2013-05-31 | GSE46578 | GEO

Genome-wide p53-occupancy in colorectal cancer cells.

Project description:In order to comprehensively identify genes directly regulated by p53, a genome-wide chromatin-immunoprecipitation analysis (ChIP) followed by next generation sequencing (ChIP-seq) was performed after activation of a conditional p53 allele in SW480 cells.

2015-07-21 | GSE67108 | GEO

Genome-wide RNA-expression analysis after p53 activation in colorectal cancer cells.

Project description:In order to comprehensively identify RNA-expression changes after p53-activation, total RNA was isolated and subjected to next generation seqencing (RNA-Seq) after activation of a conditional p53 allele in SW480 cells.

2015-07-21 | GSE67109 | GEO

HMGA2-driven gene expression in human colorectal DLD-1 cells.

Project description:Gene expression analysis of stable HMGA2-overexpressing DLD-1 cells (DLD-1-HMGA2) and its control cells (DLD-1-Vector).

2019-08-29 | GSE136544 | GEO

Gene expression analysis of cMyc-deficient CD8 T cells retrovirally overexpressing cMyc or AP4

Project description:To determine functional overlap between cMyc and AP4 in CD8+ T cell priming, we retrovirally expressed cMyc or AP4 in cMyc-deficient CD8+ T cells and examined gene expression after activation. Naive CD8+ T cells from Myc conditional knockout mice with a tamoxifen inducible Cre transgene were retrovirally transduced with Myc or AP4 followed by a treatment with 4-hydroxytamoxifen in the presence of IL-7 for 2 days. RNA was harvested 48 hours after restimulation of transduced cells with anti-CD3 antibody and gene expression was compared by microarray. CD8+ T cells from littermate wildtype mice that were transduced with an empty retrovirus were used as control.

2014-07-13 | E-GEOD-58079 | biostudies-arrayexpress

miR-21-5p-driven gene expression in human colorectal DLD-1 cells.

Project description:Gene expression analysis of stable miR-21-5p-overexpressing DLD-1 cells (DLD-1-miR-21) and its control cells (DLD-1-miR-Vec).

2019-08-31 | GSE136665 | GEO

Altered expression of genes in AP4 knockdown and overexpression

Project description:The transcription factor AP4/TFAP4/AP-4 is a ubiquitously expressed basic helix-loop-helix leucine-zipper (bHLH-LZ) transcription factor, which forms homodimer that binds to the consensus E-box motif 5-CAGCTG-3. Prostatic adenocarcinoma (PAC), also known as prostate cancer, is the second most common malignancy of men with 914,000 new cases and approximately 258,000 deaths worldwide in 2008. The goal of this study is to identify the target genes of AP4 in prostate cancer. Our results demonstrated that the genes regulated by AP4 are involved in a variety of biological functions, such as proliferation and invasion. We used microarrays to detail the different expression of genes in AP4 knockdown and overexpression and identified distinct classes of up-regulated genes during this process.

2016-06-09 | GSE83140 | GEO

AP4 regulates stem and Paneth cell homeostasis and promotes adenoma initiation in the intestine (adenoma)

Project description:AP4 is frequently expressed in primary CRCs. However, the in vivo relevance of AP4 for development of intestinal tumor formation has not been analyzed by genetic approaches. ApcMin/+ mice with deletion of AP4 were generated and analyzed. The mRNA expression profiles of intestinal adenomas with and without functional AP4 were compared.

2018-12-25 | GSE99437 | GEO

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