GEO DataSets

Analysis of tumor suppressor protein p53 gene dosage effects in HCT116 colorectal carcinoma-derived cell lines p53 -/-, +/- and +/+ at 0 and 12 hours. Cells with different numbers of functional TP53 alleles can be distinguished by gene expression profile.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 strain, 2 time sets

Platform:

GPL80

Series:

GSE90

12 Samples

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(Submitter supplied) Human colorectal carcinoma-derived cell lines, p53 -/-, +/-, +/+ at 0 and 12 hrs after growth arrest. Keywords = p53, expression, colon cancer, CSPG2 Keywords: repeat sample

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS170

Platform:

GPL80

12 Samples

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(Submitter supplied) Cellular response to ionizing radiation involves activation of the p53-dependent pathways and activation of the atypical NF-κB pathway. Mechanisms of the crosstalk between these two transcriptional networks include (co)regulation of common gene targets. Novel genes potentially (co)regulated by p53 and NF-κB were found using high-throughput genomics screening in human osteosarcoma U2-OS cells irradiated with a high dose (4 and 10 Gy). more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18460

3 Samples

Download data: BED, TXT

(Submitter supplied) Cellular response to ionizing radiation involves activation of the p53-dependent pathways and activation of the atypical NF-?B pathway. Mechanisms of the crosstalk between these two transcriptional networks include (co)regulation of common gene targets. Novel genes potentially (co)regulated by p53 and NF-?B were found using high-throughput genomics screening in human osteosarcoma U2-OS cells irradiated with a high dose (4 and 10 Gy). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

9 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL18460 GPL16791 GPL9115

63 Samples

Download data: BED, TXT

(Submitter supplied) Gene expression profiles of human HNSCC lines were compared with human normal keratinocytes by 24K cDNA microarray. The ten HNSCC analyzed are derived by the University of Michigan (UM-SCC), representing late stage SCC of different anatomic sites. Principle component analysis and hierarchical gene clustering classified ten cancer cell lines into two subsets, and associated each of the subsets with a distinctive p53 status. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6569

14 Samples

Download data: GPR

(Submitter supplied) Microarray analysis has been useful for identifying the targets of many transcription factors. However, gene expression changes in response to transcription factor perturbation reveal both direct transcriptional targets and secondary gene regulation. By integrating RNA interference, gene expression profiling, and chromatin immunoprecipitation technologies, we identified a set of 32 direct transcriptional targets of the tumor suppressor p53. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL4372 GPL3991 GPL6793

31 Samples

Download data: CEL

(Submitter supplied) Human colon carcinoma cells (HCT116) differing in TP53 status were exposed to aristolochic acid I (AAI) (50 and 100 uM for up to 48 h), and their gene expression responses compared by cDNA microarray technology. Keywords: other

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4348

36 Samples

Download data: GPR

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Other; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL11154 GPL21311

26 Samples

Download data: BW, TXT

(Submitter supplied) Analysis of p53 binding sites using multiplex enhancer reporter assays, ChIP-seq data and RNA-seq data. Transcription factors establish and maintain the specific transcriptome of a cell by binding to genomic regulatory regions, thereby regulating the transcription of their target genes. Like many transcription factors, the DNA sequence-specific binding preferences of p53 are known. However, it remains largely unclear what distinguishes functional enhancers from other bound genomic regions that have no regulatory activity. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

2 Samples

Download data: TXT

(Submitter supplied) Analysis of p53 binding sites using multiplex enhancer reporter assays, ChIP-seq data and RNA-seq data. Transcription factors establish and maintain the specific transcriptome of a cell by binding to genomic regulatory regions, thereby regulating the transcription of their target genes. Like many transcription factors, the DNA sequence-specific binding preferences of p53 are known. However, it remains largely unclear what distinguishes functional enhancers from other bound genomic regions that have no regulatory activity. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

2 Samples

Download data: BW

(Submitter supplied) Analysis of p53 binding sites using multiplex enhancer reporter assays, ChIP-seq data and RNA-seq data. Transcription factors establish and maintain the specific transcriptome of a cell by binding to genomic regulatory regions, thereby regulating the transcription of their target genes. Like many transcription factors, the DNA sequence-specific binding preferences of p53 are known. However, it remains largely unclear what distinguishes functional enhancers from other bound genomic regions that have no regulatory activity. more...

Organism:

Homo sapiens

Type:

Other

Platform:

GPL11154

10 Samples

Download data: TXT

(Submitter supplied) Analysis of p53 binding sites using multiplex enhancer reporter assays, ChIP-seq data and RNA-seq data. Transcription factors establish and maintain the specific transcriptome of a cell by binding to genomic regulatory regions, thereby regulating the transcription of their target genes. Like many transcription factors, the DNA sequence-specific binding preferences of p53 are known. However, it remains largely unclear what distinguishes functional enhancers from other bound genomic regions that have no regulatory activity. more...

Organism:

Homo sapiens

Type:

Other

Platforms:

GPL21311 GPL11154

12 Samples

Download data: TXT

(Submitter supplied) Though targeted homologous recombination, we developed a panel of matched colorectal cancer cell lines that differ only with respect to their endogenous TP53 status. We then used these lines to define the genes whose expression was altered following DNA damage induced by ionizing radiation. Transcriptome analyses revealed a consistent upregulation of polo-like kinase I (PLK1) as well as other genes controlling the G2/M transition in the cells whose TP53 genes were inactivated compared to those with wild type (wt ) TP53 genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

13 Samples

Download data: TXT

(Submitter supplied) expression analysis from a genetically engineered mouse model of osteosarcoma determine the expression profile of mouse osteosarcoma Keywords: disease state analysis

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

26 Samples

Download data: CEL

(Submitter supplied) The ts-p53 E285K protein is a rare p53 mutant with temperature-sensitive (ts) loss of function characteristics. In cancer cells, which express ts-p53 E285K intriniscally, endogenous wild type p53 activity is reconstituted by appropriate cultivation temperature (permissive condition). At non-appropriate cultivation temperature (restrictive condition) this p53 mutant is inactive. The present study took advantage of this mechanism and employed IPH-926 lobular breast cancer cells and BT-474 ductal breast cancer cells, which both harbor endogenous ts-p53 E285K, for the transcriptional profiling of p53-responsive genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

18 Samples

Download data: CEL

(Submitter supplied) Samples in this series are pre-treatment bone marrow aspirates from multiple myeloma patients. Keywords = Multiple Myeloma, Bone Marrow, Pre-Treatment Keywords: other

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

559 Samples

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(Submitter supplied) Comparison of the TP53 wild-type myeloma cell line AMO1 with the CRISPR/Cas9 engineered AMO1 cell line named UMC901. UMC901 harbors bi-allelic alterations to TP53: TP53 del/mut. Analysis of impact of TP53 alterations on gene transcription and identification of affected pathways by transcriptome-wide differential gene expression analysis.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

6 Samples

Download data: CSV

(Submitter supplied) Type I low-grade gliomas (LGGs), characterized by 1p/19q co-deletions and IDH1/2 mutations, show superior overall survival compared to other gliomas. Approximately 70% of cases harbour mutations in the Capicua (CIC) gene, whose product is a transcriptional repressor whose transcriptional network has yet to be extensively studied in human cells. To address this, we developed CIC knockout cell lines and used transcriptome analyses to study the consequences of CIC loss. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16686

6 Samples

Download data: CEL

(Submitter supplied) We used cDNA microarrays to explore the variation in expression of approximately 8,000 unique genes among the 60 cell lines used in the National Cancer Institute's screen for anti-cancer drugs. Keywords: parallel sample

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1761

Platform:

GPL1290

64 Samples

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