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Series GSE7685 Query DataSets for GSE7685
Status Public on Sep 01, 2007
Title Transcriptional profiling of growth plate chondrocyte differentiation yields insight into endochondral ossification
Organism Mus musculus
Experiment type Expression profiling by array
Summary A variety of cell cultures models and in vivo approaches have been used to study gene expression during chondrocyte differentiation. The extent to which the in vitro models reflect bona fide gene regulation in the growth plate has not been quantified. In addition, studies that evaluate global gene expression changes among different growth plate zones are limited. To address these issues, we completed a microarray screen of three growth plate zones derived from manually segmented embryonic mouse tibiae. Classification of genes differentially expressed between each respective growth plate zone, functional categorization as well as characterization of gene expression patterns, cytogenetic loci, signaling pathways and functional motifs confirmed documented data and pointed to novel aspects of chondrocyte differentiation. Parallel comparisons of the microdissected tibiae data set to our previously completed micromass culture screen further corroborated the suitability of micromass cultures for modeling gene expression in chondrocyte development. The micromass culture system demonstrated striking similarities to the in vivo microdissected tibiae screen; however, the micromass system was unable to accurately distinguish gene expression differences in the hypertrophic and mineralized zones of the growth plate. These studies will allow us to better understand zone-specific gene expression patterns in the growth plate. Ultimately, this work will help define both the genomic context in which genes are expressed in the long bones and the extent to which the micromass culture system is able to recapitulate chondrocyte development in endochondral ossification.
Keywords: Growth plate microdissection
 
Overall design Tibiae from 15.5 day old mouse embryos were isolated and partitioned into three distinct zones. Total RNA was isolated from each segment and the individual segments pooled within a litter.
Samples were hybridized to Affymetrix MOE 430 2.0 mouse chips for analysis. Four independent trials were executed for each zone.

Number of time points: 1
Number of treatments: 0
Number of Samples: 4 replicates per zone
Affymetrix chip: MOE 430 2.0
Tissue or origin: Tibiae
Species E15.5 mice
Samples: Total RNA
 
Contributor(s) Stanton L, Agoston H, James CG, Underhill TM, Beier F
Citation(s) 20084171
Submission date May 01, 2007
Last update date Feb 11, 2019
Contact name Claudine James
E-mail(s) claudinegj@hotmail.com, fbeier@uwo.ca
Phone (519)661-3387
Fax (519)850-2459
Organization name University of Western Ontario
Department Physiology and Pharmacology
Lab Frank Beier/ CIHR Group in Skeletal Development and Remodeling
Street address 1151 Richmond Street, Suite 2
City London
State/province Ontario
ZIP/Postal code N6A 5C1
Country Canada
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (12)
GSM186191 II-A
GSM186192 III-A
GSM186193 I-B
Relations
BioProject PRJNA99437

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
GSE7685_RAW.tar 55.6 Mb (http)(custom) TAR (of CEL, CHP, EXP)
Raw data provided as supplementary file
Processed data provided as supplementary file

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