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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
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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
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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.
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Contributor(s) |
Konishi K, Richards TJ, Kaminski N |
Citation(s) |
19363140, 18447576, 24376648, 21871427 |
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Submission date |
Feb 28, 2008 |
Last update date |
Sep 24, 2019 |
Contact name |
Kazuhisa Konishi |
E-mail(s) |
konishi.kazuhisa@med.osaka-cu.ac.jp
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Phone |
412-647-3156
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Organization name |
University of Pittsburgh
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Department |
Pulmonry, Allergy, and Critical Care Medicine
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Lab |
Kaminski Lab
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Street address |
1212 Kaufmann Building 3471 Fifth Ave
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City |
Pittsburgh |
State/province |
PA |
ZIP/Postal code |
15213 |
Country |
USA |
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Platforms (1) |
GPL4133 |
Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Feature Number version) |
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Samples (46)
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GSM269752 |
control, biological rep4 |
GSM269753 |
control, biological rep5 |
GSM269754 |
control, biological rep6 |
GSM269755 |
control, biological rep7 |
GSM269756 |
control, biological rep8 |
GSM269757 |
control, biological rep9 |
GSM269758 |
control, biological rep10 |
GSM269759 |
control, biological rep11 |
GSM269760 |
control, biological rep12 |
GSM269761 |
control, biological rep13 |
GSM269762 |
control, biological rep14 |
GSM269763 |
control, biological rep15 |
GSM269764 |
UIP, biological rep1 |
GSM269765 |
UIP, biological rep2 |
GSM269766 |
UIP, biological rep3 |
GSM269767 |
UIP, biological rep4 |
GSM269768 |
UIP, biological rep5 |
GSM269769 |
UIP, biological rep6 |
GSM269770 |
UIP, biological rep7 |
GSM269771 |
UIP, biological rep8 |
GSM269772 |
UIP, biological rep9 |
GSM269773 |
UIP, biological rep10 |
GSM269774 |
UIP, biological rep11 |
GSM269775 |
UIP, biological rep12 |
GSM269776 |
UIP, biological rep13 |
GSM269777 |
UIP, biological rep14 |
GSM269778 |
UIP, biological rep15 |
GSM269779 |
UIP, biological rep16 |
GSM269780 |
UIP, biological rep17 |
GSM269781 |
UIP, biological rep18 |
GSM269782 |
UIP, biological rep19 |
GSM269783 |
UIP, biological rep20 |
GSM269784 |
UIP, biological rep21 |
GSM269785 |
UIP, biological rep22 |
GSM269786 |
UIP, biological rep23 |
GSM373881 |
AEx, biological rep1 |
GSM373882 |
AEx, biological rep2 |
GSM373883 |
AEx, biological rep3 |
GSM373884 |
AEx, biological rep4 |
GSM373885 |
AEx, biological rep5 |
GSM373886 |
AEx, biological rep6 |
GSM373887 |
AEx, biological rep7 |
GSM373888 |
AEx, biological rep8 |
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Relations |
BioProject |
PRJNA107639 |
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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