GEO DataSets

Analysis of hypoxic MCF-7 breast cancer cells depleted for hypoxia-inducible factor (HIF)-1alpha, HIF-2alpha, or both HIF alpha subunits. Results provide insight into the extent of the role of HIF-1alpha and HIF-2alpha in the regulation of gene expression during hypoxia.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 4 protocol sets

Platform:

GPL570

Series:

GSE3188

12 Samples

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(Submitter supplied) The response of cells to hypoxia is characterised by co-ordinated regulation of many genes. Studies of the regulation of the expression of many of these genes by oxygen has implicated a role for the heterodimeric transcription factor hypoxia inducible factor (HIF). The mechanism of oxygen sensing which controls this heterodimeric factor is via oxygen dependent prolyl and asparaginyl hydroxylation by specific 2-oxoglutarate dependent dioxygenases (PHD1, PHD2, PHD3 and FIH-1). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS2758 GDS2759 GDS2760 GDS2761

Platforms:

GPL2507 GPL96 GPL570

39 Samples

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Analysis of hypoxic MCF-7 breast cancer cells depleted for hypoxia-inducible factor (HIF)-1alpha, HIF-2alpha, or both HIF alpha subunits. Results provide insight into the extent of the role of HIF-1alpha and HIF-2alpha in the regulation of gene expression during hypoxia.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 4 protocol sets

Platform:

GPL2507

Series:

GSE3188

12 Samples

Download data

Analysis of MCF-7 breast cancer cells exposed to hypoxia or treated with the non-specific 2-oxoglutarate (2-OG) dependent dioxygenase inhibitor dimethyloxalylglycine. Results provide insight into the role of 2-OG dioxygenases in the regulation of gene expression during hypoxia.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 protocol sets

Platform:

GPL2507

Series:

GSE3188

6 Samples

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Analysis of MCF-7 breast cancer cells exposed to hypoxia or treated with the non-specific 2-oxoglutarate (2-OG) dependent dioxygenase inhibitor dimethyloxalylglycine. Results provide insight into the role of 2-OG dioxygenases in the regulation of gene expression during hypoxia.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 3 protocol sets

Platform:

GPL96

Series:

GSE3188

9 Samples

Download data

(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) Cell lines. HEK293 human embryonic kidney cells were obtained from ATCC (American Type Culture Collection, Manassas, VA) and were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (Heat inactivated, Hyclone, Logan, Utah) and 1X antibiotics/glutamine (100 units/ml penicillin, 100ug/ml streptomycin, 292ug/ml L-Glutamine sulfate, all from Invitrogen Corp, Carlsbad, CA.), under either hypoxic (1% O2) or normoxic (21% O2) conditions at 37C in a tissue culture incubator. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS2018

Platform:

GPL1528

10 Samples

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Analysis of HEK293T embryonic kidney cells subjected to hypoxia or overexpressing hypoxia-inducible factor (HIF)-1, degradation resistant HIF-1, or HIF-2. Results provide insight into the respective roles of HIF-1 and HIF-2 in the cellular response to hypoxia.

Organism:

Homo sapiens

Type:

Expression profiling by array, log2 ratio, 4 protocol sets

Platform:

GPL1528

Series:

GSE2020

10 Samples

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(Submitter supplied) What governs the transition between the two HIFs (the HIF switch) and the role of miRNAs in this regulation is not completely clear. Using genome-wide expression studies on the miRNA content of RNA-induced silencing complex (RISC) in HUVECs exposed to hypoxia compared to the global miRNA-Seq analysis revealed dramatic differences between the two. In our analyses, compared the miRNA and mRNA levels in RISC at 2 hours (mainly HIF-1 driven), 8 hours (HIF-1 and HIF-2 elevated), and 16 hours (mainly HIF-2 driven) in a gene ontology context. more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18573

24 Samples

Download data: XLSX

(Submitter supplied) What governs the transition between the two HIFs (the HIF switch) and the role of miRNAs in this regulation is not completely clear. Using genome-wide expression studies on the miRNA content of RNA-induced silencing complex (RISC) in HUVECs exposed to hypoxia compared to the global miRNA-Seq analysis revealed dramatic differences between the two. In our analyses, compared the miRNA and mRNA levels in RISC at 2 hours (mainly HIF-1 driven), 8 hours (HIF-1 and HIF-2 elevated), and 16 hours (mainly HIF-2 driven) in a gene ontology context. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

14 Samples

Download data: XLSX

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

Organism:

Homo sapiens

Type:

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

Platform:

GPL20301

84 Samples

Download data: BED, BIGWIG, TXT

(Submitter supplied) Hypoxia inducible factor (HIF) is the major transcriptional regulator of cellular responses to hypoxia. The two principal HIF-a isoforms, HIF-1a and HIF-2a, are progressively stabilized in response to hypoxia and form heterodimers with HIF-1b to activate a broad range of transcriptional responses. Here we report on the pan-genomic distribution of isoform-specific HIF binding in response to hypoxia of varying severity and duration, and in response to genetic ablation of each HIF-a isoform. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

18 Samples

Download data: TXT

(Submitter supplied) Hypoxia inducible factor (HIF) is the major transcriptional regulator of cellular responses to hypoxia. The two principal HIF-a isoforms, HIF-1a and HIF-2a, are progressively stabilized in response to hypoxia and form heterodimers with HIF-1b to activate a broad range of transcriptional responses. Here we report on the pan-genomic distribution of isoform-specific HIF binding in response to hypoxia of varying severity and duration, and in response to genetic ablation of each HIF-a isoform. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

66 Samples

Download data: BED, BIGWIG

(Submitter supplied) Integrative analysis of RNA-seq with ATAC-seq to investigate changes in chromatin accessibility in repsonse to hypoxia.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

15 Samples

Download data: TXT

(Submitter supplied) ATAC-seq was performed to investigate changes in chromatin accessibility in repsonse to hypoxia

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24676

14 Samples

Download data: BED, BW

(Submitter supplied) ATAC-seq was performed to investigate changes in chromatin accessibility in repsonse to HIF stabilisation via VH298

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24676

4 Samples

Download data: BED, BW

(Submitter supplied) To test if HIF pathway is regulated by lipids in zebrafish larvae, we have employed whole genome microarray expression profiling as a discovery platform to identify induced genes upon lalistat or U18666A treatment. Lalistat is a specific inhibitor for lysosomal acid lipase (LAL), which is required for break down triglyceride or cholesterol ester to release free fatty acids. U18666A is a specific inhibitor for NPC, which is required for export free cholesterol oout of lysosomes.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL14688

9 Samples

Download data: TXT

(Submitter supplied) To test if HIF pathway is regulated by lipids in zebrafish larvae, we have employed whole genome microarray expression profiling as a discovery platform to identify induced genes upon lalistat treatment. Lalistat is a specific inhibitor for lysosomal acid lipase (LAL), which is required for break down triglyceride or cholesterol ester to release free fatty acids.

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14688

4 Samples

Download data: TXT

(Submitter supplied) To assay differently expressed genes in PDAC cells Pa03c cultured in regular 10% FBS medium or lipoprotein depleted 10% LPDS medium

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL10904

2 Samples

Download data: IDAT, TXT

(Submitter supplied) Ischemia exists in many diseased tissues including arthritic joints, atherosclerotic plaques and malignant tumors. Macrophages accumulate in these sites and upregulate genes in response to the hypoxia present. We used microarrays to detail the hypoxia upregulated gene in human primary macrophages.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

2 Samples

Download data: CEL, CHP