E-GEOD-13763 - Transcription profiling by array of human ovarian cancer cells after RNAi knockdown of CXCR4

Status
Released on 13 January 2009, last updated on 15 August 2013
Organism
Homo sapiens
Samples (12)
Array (1)
Protocols (5)
Description
In the past three years the role of inflammatory cytokines and chemokines in tumour promotion and progression has been intensively studied. The chemokine receptor CXCR4 and its ligand CXCL12 are commonly expressed in malignant cells from primary tumours, metastases and also in malignant cell lines. To investigate the biological significance of this receptor/ligand pair, we knocked-down CXCR4 expression in ovarian cancer cell line IGROV-1 using shRNA, and established stable cell lines. Using Affymetrix microarrays we compared in vitro gene expression in parental IGROV-1 and IGROV-Mock cells with two clones of IGROV-shCXCR4 cells. Gene Set Enrichment Analysis (GSEA) of those genes which were altered by RNA interference of CXCR4 revealed evidence for a cell autonomous signaling network involving CXCR4, TNF-a, IL6 and Notch pathways in ovarian cancer cells. Experiment Overall Design: The Affymetrix GeneChip Human Genome U133Plus 2.0 arrays were used to define gene expression profiles in each cell line.
Experiment types
transcription profiling by array, genetic modification design
Contact
Citation
A dynamic inflammatory cytokine network in the human ovarian cancer microenvironment. Kulbe H, Chakravarty P, Leinster DA, Charles KA, Kwong J, Thompson RG, Coward JI, Schioppa T, Robinson SC, Gallagher WM, Galletta L; Australian Ovarian Cancer Study Group, Salako MA, Smyth JF, Hagemann T, Brennan DJ, Bowtell DD, Balkwill FR. , Europe PMC 22065722
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-13763.idf.txt
Sample and data relationshipE-GEOD-13763.sdrf.txt
Raw data (1)E-GEOD-13763.raw.1.zip
Processed data (1)E-GEOD-13763.processed.1.zip
Array designA-AFFY-44.adf.txt
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