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Series GSE21221 Query DataSets for GSE21221
Status Public on Apr 16, 2010
Title Identification of differentially expressed genes in fibroblasts derived from patients with Dupuytren's Contracture
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Dupuytren's contracture (DC) is the most common inherited connective tissue disease of humans and is hypothesized to be associated with aberrant wound healing of the palmar fascia. Fibroblasts and myofibroblasts are believed to play an important role in the genesis of DC and the fibroproliferation and contraction that are hallmarks of this disease. This study compares the gene expression profiles of fibroblasts isolated from DC patients and controls in an attempt to identify key genes whose regulation might be significantly altered in fibroblasts found within the palmar fascia of Dupuytren's patients. Total RNA isolated from diseased palmar fascia (DC) and normal palmar fascia (obtained during carpal tunnel release; 6 samples per group) was subjected to quantitative analyses using two different microarray platforms (GE Code Link™ and Illumina™) to identify and validate differentially expressed genes. The data obtained was analyzed using The Significance Analysis of Microarrays (SAM) software through which we identified 69 and 40 differentially regulated gene transcripts using the CodeLink™ and Illumina™ platforms, respectively. The CodeLink™ platform identified 18 upregulated and 51 downregulated genes. Using the Illumina™ platform, 40 genes were identified as downregulated, eleven of which were identified by both platforms. Quantitative RT-PCR confirmed the downregulation of three high-interest candidate genes which are all components of the extracellular matrix: proteoglycan 4 (PRG4), fibulin-1 (FBLN-1) transcript variant D, and type XV collagen alpha 1 chain. Overall, our study has identified a variety of candidate genes that may be involved in the pathophysiology of Dupuytren's contracture and may ultimately serve as attractive molecular targets for alternative therapies.
Dupuytren's contracture and may ultimately serve as attractive molecular targets for alternative therapies.
 
Overall design 6 Samples from carpal-tunnel derived fibroblasts and 6 Samples from Dupuytren's contracture-derived fibroblasts were hybridized to Illumina's Sentrix Human-6 Expression Beadchip and GE Code Link arrays.
 
Contributor(s) Satish L
Citation(s) 18433489
Submission date Apr 06, 2010
Last update date Mar 22, 2012
Contact name Latha Satish
E-mail(s) lsatish@wpahs.org
Phone 412-359-6594
Organization name Allegheny-Singer Research Institute
Department Center for Genomic Sciences
Street address 320 E North Avenue
City Pittsburgh
State/province PA
ZIP/Postal code 15212
Country USA
 
Platforms (2)
GPL2507 Sentrix Human-6 Expression BeadChip
GPL10301 GE Healthcare CodeLink Human Whole Genome Bioarray (GB_ACC version)
Samples (24)
GSM530589 carpal-tunnel derived fibroblasts 1575578014_A
GSM530590 carpal-tunnel derived fibroblasts 1575578032_A
GSM530591 carpal-tunnel derived fibroblasts 1575578014_B
Relations
BioProject PRJNA126535

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
GSE21221_RAW.tar 48.7 Mb (http)(custom) TAR (of XLS)
GSE21221_codelink_median-normalized.xls.gz 8.3 Mb (ftp)(http) XLS
Processed data included within Sample table
Processed data are available on Series record

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