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Homo sapiens

ABSTRACT: PolyA RNA-seq from HCT116 (WT and CDK8as/as) cells in normoxia or hypoxia and treated with DMSO or 3MB-PP1

PROVIDER: PRJNA394729 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5832320.fastq.gz	Fastqsanger.gz
	SRR5832321.fastq.gz	Fastqsanger.gz
	SRR5832322.fastq.gz	Fastqsanger.gz
	SRR5832313.fastq.gz	Fastqsanger.gz
	SRR5832323.fastq.gz	Fastqsanger.gz

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Homo sapiens

Project description:PolyA RNAseq from HCT116 cells in normoxia and hypoxia

| PRJNA282396 | ENA

PolyA RNAseq from HCT116 cells in normoxia and hypoxia

Project description:To determine the effects of depleting TIP60, CDK8, or HIF1A on the transcriptional response to hypoxia, we performed RNAseq analysis of four HCT116 colorectal carcinoma cell lines (shNT, HIF1A-/-, shTIP60 and shCDK8) in normoxic and hypoxic (24hrs, 1% O2) conditions. PolyA RNA for two independent biological replicates was purified from HCT116 cells stably expressing an shRNA against a non-targeting control (shNT), TIP60 (shTIP60) or CDK8 (shCDK8), or genetically deleted HIF1A (HIF1A-/-) subjected to 24hrs 1% O2 (hypoxia) or maintained under ambient oxygen (21%; normoxia) was sequenced on the Ion Torrent platform. Reads were aligned to the human genome and gene-level counts were used for differential expression analysis.

2016-06-02 | E-GEOD-68297 | biostudies-arrayexpress

HIF1A ChIP-seq from HCT116, RKO, A549, and H460 cells in normoxia and hypoxia

Project description:ChIP-seq analysis was used to identify HIF1A binding sites in normoxia and hypoxia in HCT116, RKO, A549, and H460 cells

2021-01-29 | GSE145157 | GEO

RNA-seq of NIC AXL KO in hypoxia

Project description:RNA-seq of MMTV-NIC WT and AXL KO cells in normoxia and hypoxia (1% O2)

2021-06-30 | GSE158583 | GEO

CDK8 ChIP-seq from HCT116 cells in normoxia and hypoxia

Project description:To test if CDK8 acts directly at HIF1A target genes, we performed ChIP-seq experiments in HCT116 cells under normoxic and hypoxic conditions. ChIP-seq for CDK8 versus Input under normoxia and 24hrs hypoxia (1% O2).

2013-03-01 | E-GEOD-38258 | biostudies-arrayexpress

PolyA RNA-seq from HCT116 (WT and CDK8as/as) cells in normoxia or hypoxia and treated with DMSO or 3MB-PP1

Project description:To determine the impact of CDK8 kinase activity on steady-state mRNA levels, we performed RNA-seq analysis of colorectal carcinoma cell line HCT116 (CDK8wt/wt and CDK8as/as) in the presence of absence of 3MB-PP1 to specifically inhibit analog senstitive (as) CDK8.

2017-11-07 | GSE101526 | GEO

Determining changes in the immunopeptidome of HCT116 cells after treamtent with hypoxia

Project description:To determine if the changes in MHC I expression under hyppoxia results in a change in the antigen presentation, we used LC-MS technology to analyze the immunopeptidome. HCT116 cells were treated either in normoxia (21% O2) or hypoxia for 24 hours cells were then collected and a quantitative analysis of the immunopeptidome was performed

2024-10-31 | PXD055202 | Pride

Determining changes in the immunopeptidome of HCT116 cells after treamtent with hypoxia

2024-11-04 | PXD055205 | Pride

Gene expression profile of HCT116 exposed to chronic hypoxia

Project description:To identify genes involved in survival to prolonged hypoxia we exposed HCT116 to hypoxia for 3 days. Control cells were exposed to normoxic conditions. HCT116 colon cancer cells were serum starved and exposed to hypoxia (1%O2) or normoxia (21%O2) for 3 days.

2013-01-18 | E-GEOD-43608 | biostudies-arrayexpress

H1299 cells: p53 transcriptional response in hypoxia

Project description:Transcriptional profiling of H1299 non-small cell lung carcinoma cells transfected with either wt p53 or mut(175) p53 driven by the 5xHRE promoter (5 repeats of hypoxia-inducible factor response elements) and treated for 16 h with normoxia (21% O2) or hypoxia(<0.1% O2). 5xHRE promoter ensures that p53 expression is induced in hypoxic conditions only. Goal was to determine the transcriptional response of p53 in hypoxia and the 175 p53 mutant was used as a control as it is DNA-binding defective and transcription-incompetent mutant. Four-condition experiment: wt p53-transfected H1299 cells treated with normoxia, mut p53-transfected H1299 cells treated with normoxia, wt p53-transfected H1299 cells treated with hypoxia, mut p53-transfected H1299 cells treated with hypoxia. Biological replicates: 1 normoxic sample with wt p53, 1 normoxic sample with mut p53, 3 hypoxic samples with wt p53, 3 hypoxic samples with mut p53.

2014-01-08 | E-GEOD-53893 | biostudies-arrayexpress

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