Similar studies for GEO DataSets (Select 200101064) - GEO DataSets

(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

Series

Accession:: GSE120886

ID:: 200120886

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001208854.

Inherent DNA binding specificities of the HIF-1α and HIF-2α transcription factors in chromatin (ChIP-seq)

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL20301
66 Samples

Download data: BED, BIGWIG

Series

Accession:: GSE120885

ID:: 200120885

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001010635.

Open Chromatin and HIF-binding in renal tubular cells [ChIP-seq]

(Submitter supplied) Un-physiological activation of hypoxia inducible factor (HIF) is an early event in most renal cell cancers (RCC) following inactivation of the von Hippel-Lindau tumor suppressor. Despite intense study, how this impinges on cancer development is incompletely understood. To test for the impact of genetic signals on this pathway, we aligned human RCC-susceptibility polymorphisms with genome-wide assays of HIF-binding and observed highly significant overlap. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL16791
2 Samples

Download data: BW

Series

Accession:: GSE101063

ID:: 200101063

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001010626.

Open Chromatin and HIF-binding in renal tubular cells [FAIRE-seq]

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL16791
3 Samples

Download data: BW

Series

Accession:: GSE101062

ID:: 200101062

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000781147.

Capture-C reveals preformed chromatin interactions between HIF-binding sites and distant promoters.

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

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:: GPL16791 GPL20301
34 Samples

Download data: BED, BW

Series

Accession:: GSE78114

ID:: 200078114

PubMed Full text in PMC Similar studies

Select item 2000781138.

Capture-C reveals preformed chromatin interactions between HIF-binding sites and distant promoters. [ChIP-Seq]

(Submitter supplied) Hypoxia inducible factor (HIF) directs an extensive transcriptional cascade that transduces numerous adaptive responses to hypoxia. Pan-genomic analyses, using chromatin immunoprecipitation and transcript profiling, have revealed large numbers of HIF-binding sites that are generally associated with hypoxia-inducible transcripts, even over long chromosomal distances. However, these studies do not define the specific targets of HIF-binding sites and do not reveal how induction of HIF affects chromatin conformation over distantly connected functional elements. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL16791
26 Samples

Download data: BED

Series

Accession:: GSE78113

ID:: 200078113

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000283529.

High resolution genome-wide mapping of HIF binding sites by ChIP-seq

(Submitter supplied) We report ChIP-Seq analysis of HIF-1 alpha, HIF-2 alpha, and HIF-1 beta binding in MCF-7 breast cancer cells

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL9115
5 Samples

Download data: TXT

Series

Accession:: GSE28352

ID:: 200028352

PubMed Full text in PMC Similar studies

Select item 20008444410.

A renal cancer-associated, renal tubule-specific, HIF-binding enhancer of oncogenic MYC and PVT1 expression

(Submitter supplied) Clear cell renal cell carcinoma is characterized by loss of function of the von Hippel-Lindau tumor suppressor gene (VHL) and unrestrained activation of hypoxia inducible transcription factors (HIF). Genetic and epigenetic determinants can impact on HIF pathways. A recent genome-wide association study identified single nucleotide polymorphisms (SNPs) in an intergenic region on chromosome 8 that modify the risk of developing renal cancer. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL20301
3 Samples

Download data: BW

Series

Accession:: GSE84444

ID:: 200084444

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20013099011.

Co-incidence of RCC-susceptibility polymorphisms with HIF cis-acting sequences supports a pathway tuning model of cancer

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

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:: GPL20301
10 Samples

Download data: BED, BIGWIG, TAR

Series

Accession:: GSE130990

ID:: 200130990

PubMed Full text in PMC Similar studies

Select item 20013098912.

ChIP-seq analysis of HIF-1b binding in hypoxic cancer cell lines

(Submitter supplied) Pan-genomic analysis of hypoxic HIF-1b binding by ChIP-seq in cancer cell lines

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL20301
8 Samples

Download data: BED, BIGWIG

Series

Accession:: GSE130989

ID:: 200130989

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20013098813.

Capture-C analysis of RCC-susceptibility loci in 786O renal cancer cell line

(Submitter supplied) Analysis of chromatin looping identies gene promoters that interact with enhancers and HIF-binding sites at kidney cancer-associated susceptibility loci

Organism:: Homo sapiens

Type:: Other

Platform:: GPL20301
2 Samples

Download data: TAR

Series

Accession:: GSE130988

ID:: 200130988

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010210114.

Transcriptomics profiles of patient-matched normal kidney and ccRCC pairs

(Submitter supplied) VHL loss is the most common genetic alteration event in ccRCC, but its effect on epigenetic landscape has not been elucidated previously. We describe the genome-wide cis-regulatory landscapes of VHL-deficient ccRCC tumors by comparing the epigenetic changes in terms of histone modifications (H3K27ac, H3K4me1, H3K4me3) with the transcriptomics profiles in 10 pairs of normal kidney and ccRCC tissues.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
20 Samples

Download data: BW

Series

Accession:: GSE102101

ID:: 200102101

Select item 20010209715.

VHL/HIF2a axis alters transcriptomic profiles in ccRCC

(Submitter supplied) VHL loss is the most common genetic alteration event in ccRCC. VHL loss stabilizes hypoxia-inducible factor-2 alpha (HIF2a). We compared the changes in transcriptomics profiles after VHL restoration or HIF2a siRNA knockdown in 786-O cells.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
4 Samples

Download data: BW

Series

Accession:: GSE102097

ID:: 200102097

Select item 20010209516.

VHL restoration alters cis-regulatory landscape

(Submitter supplied) VHL loss is the most common genetic alteration event in ccRCC. By profiling histone modifications from VHL-deficient ccRCC primary tumors and cell lines, we identifed tumor-associated promoters and enhancers. We next investigate whether VHL restoration alters tumor associated promoters and enhancers. We compared H3K27ac ChIP-seq with and without VHL restoration in 786-O cells. Restoration of wild-type VHL significantly altered a subset of tumor enhancers but affected promoters to a less extent.

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL16791
52 Samples

Download data: BED

Series

Accession:: GSE102095

ID:: 200102095

PubMed Similar studies SRA Run Selector

Select item 20008609517.

VHL deficiency drives enhancer activation of oncogenes in clear cell renal cell carcinoma

(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

Platforms:: GPL11154 GPL16791
195 Samples

Download data: BED, BW

Series

Accession:: GSE86095

ID:: 200086095

PubMed Similar studies

Select item 20008609218.

Transcription factors enriched in tumor-associated enhancers in VHL-deficient ccRCC

(Submitter supplied) VHL loss is the most common genetic alteration event in ccRCC. We profiled histone modifications from VHL-deficient ccRCC primary tumors and cell lines. We show that ccRCCs exhibit a pervasive gain of enhancers around hypoxic and metabolic transcriptional targets. Motif analysis using HOMER revealed significant enrichment of AP-1, ETS, NFĸB and HIFα in tumor enhancers. We generated ChIP-seq binding data for c-Jun, ETS1, NFĸB, and P300, a histone acetyltransferase, in 786-O cells. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL16791
8 Samples

Download data: BED

Series

Accession:: GSE86092

ID:: 200086092

PubMed Similar studies SRA Run Selector

Select item 20008609119.

cis-regulatory landscape in ccRCC [tissue]

(Submitter supplied) VHL loss is the most common genetic alteration event in ccRCC, but its effect on epigenetic landscape has not been elucidated previously. By performing histone modifications (H3K27ac, H3K4me1, H3K4me3) from ccRCC cell lines, we describe the genome-wide cis-regulatory landscapes of VHL-deficient ccRCC tumors. We show that ccRCCs exhibit a pervasive gain of enhancers around hypoxic and metabolic transcriptional targets.