Transcriptomics

Dataset Information

297

PolyA RNAseq from HCT116 cells in normoxia and hypoxia


ABSTRACT: 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.

ORGANISM(S): Homo sapiens  

SUBMITTER: Ahwan Pandey   Veronica L Dengler  Matthew D Galbraith 

PROVIDER: E-GEOD-68297 | ArrayExpress | 2016-06-02

SECONDARY ACCESSION(S): SRP057708GSE68297PRJNA282396

REPOSITORIES: GEO, ArrayExpress, ENA

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