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Series GSE10667 Query DataSets for GSE10667
Status Public on Feb 20, 2009
Title MMP1 and MMP7 as potential peripheral blood biomarkers in Idiopathic Pulmonary Fibrosis
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Idiopathic pulmonary fibrosis (IPF) is a chronic progressive fibrotic lung disease associated with significant morbidity and mortality. We identified a combinatorial signature of 5 proteins that was sufficient to distinguish IPF patients from controls; of these proteins MMP7 and MMP1 exhibited significantly higher values in both peripheral blood concentrations and lung tissue gene expression, suggesting their role as true biomarkers.
Keywords: disease versus control
Overall design Lung tissue samples for microarray analysis were obtained through the
University of Pittsburgh Health Sciences Tissue Bank. Twenty-three samples were obtained from surgical remnants of biopsies or lungs explanted from patients with IPF who underwent pulmonary transplant, eight patients with idiopathic pulmonary fibrosis whose pathological findings were indicative of the acute exacerbations, and 15 control normal lung tissues obtained from the disease free margins with normal histology of lung cancer resection specimens. The morphologic diagnosis of IPF was based on typical microscopic findings consistent with usual interstitial pneumonia.
Total RNA was used as a template for synthesis of cDNA as recommended by the manufacturer of the arrays (Agilent Technologies, Santa Clara, CA). The cDNA was used as a template to generate Cy3 labeled cRNA that was used for hybridization on Agilent Whole Human Genome 4 X 44K multi pack arrays (Agilent Technologies, Santa Clara, CA). After 17 hours hybridization, arrays were washed and scanned according to the manufacturer’s protocol.
Contributor(s) Konishi K, Richards TJ, Kaminski N
Citation(s) 19363140, 18447576, 24376648, 21871427
Submission date Feb 28, 2008
Last update date Sep 24, 2019
Contact name Kazuhisa Konishi
Phone 412-647-3156
Organization name University of Pittsburgh
Department Pulmonry, Allergy, and Critical Care Medicine
Lab Kaminski Lab
Street address 1212 Kaufmann Building 3471 Fifth Ave
City Pittsburgh
State/province PA
ZIP/Postal code 15213
Country USA
Platforms (1)
GPL4133 Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Feature Number version)
Samples (46)
GSM269749 control, biological rep1
GSM269750 control, biological rep2
GSM269751 control, biological rep3
BioProject PRJNA107639

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
GSE10667_RAW.tar 356.0 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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