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Series GSE57871 Query DataSets for GSE57871
Status Public on Jun 30, 2016
Title RNA-seq analysis of vorinostat-resistant HCT116 cells following gene knockdown of GLI1 or PSMD13 with or without vorinostat treatment
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Transcriptome analysis was conducted on vorinostat resistant HCT116 cells (HCT116-VR) upon knockdown of potential vorinostat resistance candidate genes in the presence and absence of vorinostat. Potential vorinostat resistance candidate genes chosen for this study were GLI1 and PSMD13, which were identified through a genome-wide synthetic lethal RNA interference screen. To understand the transcriptional events underpinning the effect of GLI1 and PSMD13 knockdown (sensitisation to vorinostat-induced apoptosis), cells were first subjected to gene knockdown, then to treatment with vorinsotat or the solvent control. Two timepoints for drug treatment were assessed: a timepoint before induction of apoptosis (4hrs for siGLI1 and 8hrs for siPSMD13) and a timepoint when apoptosis could be detected (8hrs for siGLI1 and 12hrs for siPSMD13).
Overall design There are 42 samples in total, from triplicate independent biological experiments of 14 samples each.
Contributor(s) Falkenberg KJ, Gould CM, Johnstone RW, Simpson KJ
Citation(s) 26868908
Submission date May 21, 2014
Last update date May 15, 2019
Contact name Katrina Joy Falkenberg
Organization name Peter MacCallum Cancer Centre
Department Research Division
Lab Gene Regulation Laboratory
Street address St Andrews Place
City East Melbourne
State/province Victoria
ZIP/Postal code 3002
Country Australia
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (42)
GSM1395357 mock_DMSO_4hr rep1
GSM1395358 mock_DMSO_8hr rep1
GSM1395359 mock_DMSO_12hr rep1
BioProject PRJNA248301
SRA SRP042158

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Supplementary file Size Download File type/resource
GSE57871_GLI1_PSMD13_Expt_normalised_expression.tsv.gz 4.6 Mb (ftp)(http) TSV
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Raw data are available in SRA
Processed data are available on Series record

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