GEO DataSets

(Submitter supplied) CHD4 coactivates a subset of HIF target genes in breast cancer MDA-MB-231 cells.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

8 Samples

Download data: TXT

(Submitter supplied) ZMYND8 coactivates the global HIF target genes in breast cancer MDA-MB-231 cells.

Organism:

Homo sapiens

Type:

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

Platform:

GPL18573

20 Samples

Download data: BED, BIGWIG, TXT

(Submitter supplied) Tumour hypoxia is a recognised driver of breast cancer pathology. The main cellular response to hypoxia is mediated by the hypoxia-inducible factors HIF1 and HIF2, and is controlled through the regulation of oxygen-labile HIFα subunits. HIF1α has a well-established role in breast cancer where it has also been shown to be regulated by growth factor signalling. However, the role of HIF2α has been less thoroughly researched. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

18 Samples

Download data: TXT

(Submitter supplied) RAB11B-AS1 is induced by hypoxia and controls gene expression in breast cancer cells under hypoxia

Organism:

Homo sapiens

Type:

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

Platform:

GPL18573

9 Samples

Download data: BIGWIG, TXT

(Submitter supplied) Inflammation is a significant risk factor for colon cancer. Recent work has demonstrated essential roles for several infiltrating immune populations in the metaplastic progression following inflammation. Hypoxia and stabilization of hypoxia-inducible factors (HIFs) are hallmark features of inflammation and solid tumors. Previously, we demonstrated an important role for tumor epithelial HIF-2α in colon tumors; however, the function of epithelial HIF-2α as a critical link in the progression of inflammation to cancer has not been elucidated. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

18 Samples

Download data: TXT

(Submitter supplied) PAX3-FOXO1 is a fusion transcription factor characteristic for the majority of alveolar rhabdomyosarcoma tumors. It is the main oncogenic driver and deregulates expression of PAX3 target genes. The PAX3-FOXO1 target gene signature was determined in the Rh4 alveolar rhabdomyosarcoma cell line.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL96

14 Samples

Download data: CEL

(Submitter supplied) CHD4 is an ATPase able to use the energy from ATP to shift or remove nucleosomes from specific sites in the chromatin, thereby affecting accessability of gene regulatory elements. It is part of the NuRD complex. The effect of CHD4 on global gene expression was evaluated in Rh4 alveolar rhabdomyosarcoma cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

12 Samples

Download data: CEL

(Submitter supplied) The C-terminal activation domain (C-TAD) of the hypoxia-inducible transcription factors HIF-1? and HIF-2? binds the CH1 domains of the related transcriptional coactivators CREB-binding protein (CBP) and p300, an oxygen-regulated interaction thought to be highly essential for hypoxia-responsive transcription. The role of the CH1 domain in vivo is unknown, however. We created mutant mice bearing deletions in the CH1 domains (?CH1) of CBP and p300 that abrogate their interactions with the C-TAD, revealing that the CH1 domains of CBP and p300 are genetically non-redundant and indispensable for C-TAD transactivation function. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platforms:

GPL1261 GPL339

32 Samples

Download data

(Submitter supplied) The CH1 protein interaction domain of the transcriptional coactivators p300 and CBP is thought to interact with HIF-1alpha and this interaction is thought to be critical to the expression of HIF-1alpha target genes in response to hypoxia. Trichostatin A (TSA), an inhibitor of histone deacetylases, has been reported to repress the expression of HIF-1alpha target genes. To test the requirement of the CH1 domain and TSA for gene expression in response to dipyridyl (a hypoxia mimetic), primary mouse embryonic fibroblasts (MEFs) were generated from C57Bl/6x129/Sv F2 e14.5 embryos that contain a deletion in the CH1 domain of three of four alleles of CBP and p300. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2162

Platform:

GPL1261

16 Samples

Download data

(Submitter supplied) The CH1 protein interaction domain of the transcriptional coactivators p300 and CBP is thought to interact with HIF-1alpha and this interaction is thought to be critical to the expression of HIF-1alpha target genes in response to hypoxia. To test the requirement of the CH1 domain for gene expression in response to hypoxia, rimary mouse embryonic fibroblasts (MEFs) were generated from C57Bl/6x129/Sv F2 e14.5 embryos that contain a deletion in the CH1 domain of three of four alleles of CBP and p300. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2161

Platform:

GPL1261

12 Samples

Download data

(Submitter supplied) The CH1 (TAZ) domain of the transcriptional coactivators p300 and CBP has been reported to interact with the transcription factor HIF-1alpha and this interaction is thought to be critical for HIF-1alpha target gene expression in response to hypoxia. To determine the requirement for the CH1 domain in hypoxia-responsive gene expression, primary mouse embryonic fibroblasts (MEFs) were generated from e14.5 C57B/6x129/Sv F2 embryos that were either wildtype or bore deletion mutations in the CH1 protein binding domains of both alleles of p300 and one allele of CBP (tri_CH1). more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2160

Platform:

GPL339

4 Samples

Download data

Analysis of trichostatin A (TSA)-treated hypoxic fibroblasts with deletions in CH1 domains of p300 and CBP, and a p300 or CBP allele knockout. TSA is a histone deacetylase inhibitor. Results provide insight into the role of deacetylase activity in CH1-independent hypoxia inducible transcription.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 4 agent, 4 genotype/variation sets

Platform:

GPL1261

Series:

GSE3296

16 Samples

Download data

Analysis of hypoxic fibroblasts with deletions in the CH1 domains of p300 and CBP combined with a p300 or CBP allele knockout. CH1 domains interact with the C-TAD domain of hypoxia-inducible transcription factors HIF-1a and -2a. Results provide insight into the role for CH1 domains in hypoxia.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 4 genotype/variation, 2 stress sets

Platform:

GPL1261

Series:

GSE3196

12 Samples

Download data

Analysis of hypoxic fibroblasts bearing deletions in the CH1 domains of 1 allele of p300 and 2 alleles of CBP. CH1 domains interact with the C-TAD domain of hypoxia-inducible transcription factors HIF-1a and -2a. Results provide insight into the role of CH1 domains in the hypoxia response.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 genotype/variation, 2 stress sets

Platform:

GPL339

Series:

GSE3195

4 Samples

Download data

(Submitter supplied) Primary human macrophages with a HIF-1alpha or HIF-2alpha knockdown were pretreated with IL-10 for 16h and afterwards for 4h additionaly under hypoxi (1% O2), RNA was isolated usind the Qiagen RNAeasy Kit and cDNA synthesis wos done using Ambion WT Expression Kit. Expression was compared to si control under control conditions.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6244

36 Samples

Download data: CEL

(Submitter supplied) Recently, we described a new animal model of CNS primitive neuroectodermal tumors (CNS-PNET), which was generated by orthotopic transplantation of human Radial Glial (RG) cells into NOD-SCID mice’s brain sub- ventricular zone. In the current study we conducted comprehensive RNA-Seq analyses to gain some insights on the mechanisms underlying tumorigenesis in this mouse model of CNS-PNET. Here we show that the RNA-Seq profiles derived from these tumors cluster with those reported for patients’ PNETs.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

3 Samples

Download data: TXT

(Submitter supplied) During tumour growth cancer cells are subject to and selected by microenvironmental stress. The selection of such cells allows for continued growth and survival, during hypoxia, acidosis, nutritional deprivation, drug treatment and radiation. However, there is great microenvironmental heterogeneity in every tumour. Must studies of gene regulation in vitro investigate whole cell populations, often by western blotting or mRNA expression. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

384 Samples

Download data: TSV

(Submitter supplied) Oxygen is essential for cell growth, however in tumours quick growth can cause hypoxic conditions. To determine the changes in the chromatin landscape in response to hypoxia in breast cancer we have performed ATAC-seq dugin normoxia and hypoxia.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18573

11 Samples

Download data: BW

(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; Methylation profiling by high throughput sequencing

Platforms:

GPL18573 GPL24676 GPL15520

102 Samples

Download data: BED, BIGWIG

(Submitter supplied) Transcription factors induce dynamic chromatin reorganization during cell fate transition. Pioneer transcription factors are defined as their capability to engage chromatin by binding to nucleosomal DNA in closed chromatin and inducing chromatin opening. However, it has been also shown that these activities are context dependent. Only a subset of pioneer factors’ binding sites become open and the rest of binding sites remain closed. more...

Organism:

Homo sapiens

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL15520 GPL24676

50 Samples

Download data: BIGWIG