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Series GSE29316 Query DataSets for GSE29316
Status Public on May 17, 2011
Title Expression data from colon fibroblasts treated with Sonic hedgehog homolog (SHH)
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Canonical Hedgehog (Hh) signaling regulates the expression of genes that are critical to the patterning and development of a variety of organ systems. In adult, both ligand-dependent and ligand-independent Hh pathway activation are known to promote tumorigenesis. Recent studies have shown that in tumors promoted by Hh ligand, activation occurs within the stromal microenvironment (Yauch et al., 2009). In situ hybridization of the pathway target gene, Ptch1, shows that signaling is located at stromal perivascular fibroblast-like cells in xenograft tumor sections derived from Hh-expressing colorectal cancer cell lines.
To study the downstream genes regulated by Hh signaling, we treated a primary human colon myofibroblast, CCD-18Co, with SHH (1 ug/ml) or no treatment (control) in serum-free medium supplemented with 0.1% BSA for 72 hrs and performed microarray analysis (Affymetrix U133P) on these samples.
Overall design Three biological replicates of SHH stimulated and three replicates of unstimulated primary colon myofibroblast cells CCD-18Co were used in the experiment to analyze their gene expression.
Contributor(s) Chen W, Yauch R, Modrusan Z
Citation(s) 21597001
Submission date May 16, 2011
Last update date Mar 25, 2019
Contact name Weiwei Chen
Organization name Genentech
Street address 1st DNA Way
City SSF
ZIP/Postal code 94080
Country USA
Platforms (1)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
Samples (6)
GSM724521 Untreated, replicate 1
GSM724522 Untreated, replicate 2
GSM724523 Untreated, replicate 3
BioProject PRJNA138655

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE29316_RAW.tar 50.6 Mb (http)(custom) TAR (of CEL)
GSE29316_downregulated_1176.txt.gz 39.8 Kb (ftp)(http) TXT
GSE29316_p_value_0.05.txt.gz 285.1 Kb (ftp)(http) TXT
GSE29316_readme.txt 1002 b (ftp)(http) TXT
GSE29316_t-stat_All_genes.txt.gz 3.8 Mb (ftp)(http) TXT
GSE29316_top100_comb.txt.gz 12.8 Kb (ftp)(http) TXT
GSE29316_top50_downregulated.txt.gz 6.8 Kb (ftp)(http) TXT
GSE29316_top50_upregulated.txt.gz 6.6 Kb (ftp)(http) TXT
GSE29316_upregulated_1235.txt.gz 37.5 Kb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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