Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 12
Release date: Apr 19 2018
Last update date: Nov 27 2018
Access: Public
Diseases: Breast Neoplasms, Carcinoma, Renal Cell, Hypoxia, Brain, Medulloblastoma, Neoplasms
Genes: EPAS1, HIF1A
Dataset link DAOY-NERT2 Notch/Hypoxia Transcriptome Analysis

Experimental Protocol


DAOY-NERT2 cells, +/- Notch induction by Tamoxifen (TMX) for 48 hours, +/- hypoxia (1% O2) treatment for 48 hours, where HIF1a or HIF2a had been knocked down by siRNA, were subjected to RNA sequencing. The quality of the cDNA libraries was tested on an Agilent 2100 bioanalyzer. The libraries were sequenced on an Illumina HiSeq 2000 system, and the reads were aligned to the human genome (assembly hg19) and a transcriptome database (RefSeq and Ensembl) using bowtie. RPKM values were generated using rpkmforgenes.

Repositories


GEO

GSE113353

ENA

SRP141017

BioProject

PRJNA450861

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Contact


Urban Lendahl