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Series GSE7403 Query DataSets for GSE7403
Status Public on Mar 01, 2008
Title Expression data from PDGF-treated SH-SY5Y cells
Organism Homo sapiens
Experiment type Expression profiling by array
Summary We conducted a proof-of-concept experiment to explore the possibility of using gene expression-based high throughput screening (GE-HTS) to find inhibitors of a signaling cascade, using platelet derived growth factor receptor (PDGFR) signaling as the example.
To define ERK/PDGFR activation signature, we performed gene expression profiling using Affymetrix U133A arrays 0.5-4 hours following PDGF stimulation, thereby identifying those genes whose expression is correlated with PDGFR activity. In order to identify the component of the gene expression signature that was attributable to ERK activation by PDGFR (as opposed to other pathways downstream of PDGFR), we also pretreated the cells will the ERK inhibitors U0126 and PD98059, and repeated the gene expression profiling studies.
Keywords: time course, inhibitor treatment
 
Overall design To define ERK/PDGFR activation signature, SH-SY5Y cells were grown to confluence and starved overnight in serum-free medium in order to silence any sustained effects from growth factor signaling. Prior to induction with 50ng/ml PDGF, cells were treated with pathway inhibitors 74 mM Apigenin or 50 mM U0126, or with DMSO (carrier) for 60 minutes. Total RNA was isolated 30 minutes after PDGF addition. Experiments were performed in duplicate. The RNA was processed and hybridized with Affymetrix U133A GeneChips.
 
Contributor(s) Antipova AA, Stockwell BR, Golub TR
Citation(s) 18312689
Submission date Mar 29, 2007
Last update date Aug 10, 2018
Contact name Alena A Antipova
Organization name Broad Institute of Massachusetts Institute of Technology and Harvard University
Street address 7 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (1)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
Samples (39)
GSM178569 PDGF_half_hour, biological rep1
GSM178570 PDGF_half_hour, biological rep2
GSM178571 U0126_PDGF_half_hour, biological rep1
Relations
BioProject PRJNA97897

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Supplementary file Size Download File type/resource
GSE7403_RAW.tar 132.3 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file

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