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Series GSE23196 Query DataSets for GSE23196
Status Public on Dec 05, 2011
Title High IGFBP2 Expression Correlates with Tumor Severity in Pediatric Rhabdomyosarcoma.
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Rhabdomyosarcoma (RMS) is the most common childhood sarcoma and is identified as either the embryonal or alveolar (ARMS) subtype. In approximately 75% of cases, ARMSs are characterized by specific chromosomal translocations that involve PAX and FKHR genes. ARMS gene expression signatures vary, depending on the presence or absence of the translocations. Insulin-like growth factor-binding protein 2 (IGFBP2) is strongly overexpressed in translocation-negative RMS. Because IGFBP2 is associated with tumorigenesis, we investigated its functional role in RMS. An analysis of IGFBP2 distribution in RMS cell lines revealed a strong accumulation in the Golgi complex, in which morphological characteristics appeared peculiarly modified. After silencing IGFBP2 expression, our microarray analysis revealed mostly cell cycle and actin cytoskeleton gene modulations. In parallel, IGFBP2-silenced cells showed reduced cell cycle and rates of invasion and decreased seeding in the lungs after tail vein injections in immunodeficient mice. An analysis of IGFBP2 mRNA and protein localization in human tumors showed abnormal protein accumulation in the Golgi complex, mostly in PAX/FKHR-negative RMS. Moreover, an analysis of patients with RMS revealed the presence of conspicuous circulating levels of IGFBP2 proteins in children with highly aggressive RMS tumors. Taken together, our data provide evidence that IGFBP2 contributes to tumor progression and that it could be used as a marker to better classify clinical and biological risks in RMS.
 
Overall design Three independent silencing experiments on RH36, an embryonal rhabdomyosarcoma cell line, were performed to study the role of IGFBP2 oncogene in this childhood tumor.
Each of 3 biological replicates has its own control which is represented by cell culture treated with a non-targeting siRNA (siCONTROL). 3 controls were used to produce a “control pool” that has been used as reference in all microarray experiments.
Each microarray experiment consists of a competitive hybridization between test and reference RNA (e.g. silenced cells vs. control), labelled with Cy3 or Cy5.
Two microarray experiments were performed for each of three silencing experiment (technical replicate).
Each slide was scanned and the data was normalized and analyzed.
 
Contributor(s) Tombolan L, Casara S, De Pittà C, Orso F, Zin A, Guzzardo V, Romualdi C, Alaggio R, Taverna D, Rosolen A, Lanfranchi G
Citation(s) 21924226
Submission date Jul 27, 2010
Last update date Mar 22, 2012
Contact name Gerolamo Lanfranchi
E-mail(s) stefano.cagnin@unipd.it
Phone +39-0498276219
Organization name University of Padova
Department CRIBI - Biotechnology Center and Biology Department
Lab Functional Genomics Lab
Street address Via U. Bassi, 58/B
City Padova
ZIP/Postal code 35131
Country Italy
 
Platforms (1)
GPL2136 Micro-CRIBI Human Oligo Array (Operon V2.0)
Samples (6)
GSM570808 IGFBP2 silencing - experiment 1A
GSM570809 IGFBP2 silencing - experiment 1B (Technical replicate)
GSM570827 IGFBP2 silencing - experiment 2A
Relations
BioProject PRJNA131545

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
GSE23196_RAW.tar 32.9 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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