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PolyA RNA-seq from RKO, A549, and H460 cells in normoxia and hypoxia

ABSTRACT: PolyA RNA-seq from RKO, A549, and H460 cells in normoxia and hypoxia

PROVIDER: PRJNA606047 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11067864.fastq.gz	Fastqsanger.gz
	SRR11067865.fastq.gz	Fastqsanger.gz
	SRR11067866.fastq.gz	Fastqsanger.gz
	SRR11067867.fastq.gz	Fastqsanger.gz
	SRR11067868.fastq.gz	Fastqsanger.gz

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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.

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Project description:Comparing genome-wide gene expression profiles of highly metastatic lung cancer cell line NCI-H460-LNM35 vs low metastatic parental clone NCI-H460-N15 Keywords: Expression profiling with cDNA microarray

2010-08-21 | GSE16649 | GEO

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