E-GEOD-51415 - Transcription profiling by high throughput sequencing of retinoic acid treated human oral squamous cell carcinoma cells and normal cells

Status
Released on 19 October 2013, last updated on 5 April 2016
Organism
Homo sapiens
Samples (12)
Protocols (4)
Description
To gain insight into the molecular changes during OSCC carcinogenesis, we performed unbiased, whole genome deep sequencing (RNA-seq) using RNA isolated from cultured, human TERT-immortalized, non-tumorigenic OKF6-TERT1R and OSCC SCC-9 cells. OKF6-TERT1R cells and SCC-9 cells were plated in 10 cm2 tissue culture plates at the density of 2 × 106 cells/plate and treated with 1 μM RA or vehicle (0.1% ethanol) for 48 hours. Experiment includes 3 independent biological replicates. Note: All samples in SRA were assigned the same sample accession (GSM1245064 1). This is incorrect as there are different samples, hence “Source Name” was replaced with new values. Comment[ENA_SAMPLE] contains the original SRA sample accessions.
Experiment type
RNA-seq of coding RNA 
Contacts
Katarzyna Maria Marcinkiewicz <kas2021@med.cornell.edu>, Katarzyna M Marcinkiewicz, Lorraine J Gudas
Citation
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-51415.idf.txt
Sample and data relationshipE-GEOD-51415.sdrf.txt
Links