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Status |
Public on Sep 01, 2017 |
Title |
Specific normalization of urinary mRNAs reveals genome-wide patterns associated with renal allograft subclinical injury |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by array
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Summary |
urinary mRNA quantification using an Agilent 60k microarray in 26 stable kidney transplant patients with or without renal partial Epithelial to Mesenchymal Transition Subclinical pathological features on the 3-month biopsy of renal allografts predict a poor prognosis, but it is unclear whether surveillance biopsies are beneficial. Non-invasive biomarkers are wanted, and urinary pellet RNA quantification of selected candidate genes has been used with some success do detect overt rejection. We performed a mRNA microarray study using different normalization methods on the urinary cell pellet to evaluate the feasibility of using urine to detect renal partial epithelial mesenchymal transition of the renal allograft (renal pEMT) non-invasively in a group of 26 stable transplanted patients. We found that, when using a novel method of normalization by Upk1a mRNA, renal pEMT of the renal allograft was associated in urine with differential expression of genes belonging to predefined gene sets of kidney-expressed genes and epithelial mesenchymal transition genes. An unbiased pathway analysis revealed that the immune response was the main urinary biological process associated with pEMT in the kidney. In urine from patients with pristine biopsies, pEMT was not associated with inflammation, but with reduced metabolic functions. Thus, we show that pEMT translates into specific UPK1a-normalized mRNA patterns in urine and use genome-wide analyses to characterize underlying molecular patterns, i.e. increased inflammation and decreased metabolic functions.
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Overall design |
12 pateins without renal partial Epithelial to Mesenchymal Transition and 14 patients with renal partial Epithelial to Mesenchymal Transition
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Contributor(s) |
Galichon P |
Citation(s) |
29697267 |
Submission date |
Nov 08, 2016 |
Last update date |
Nov 27, 2018 |
Contact name |
Pierre Galichon |
E-mail(s) |
galichon@me.com
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Phone |
+33685717580
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Organization name |
Assistance Publique - Hopitaux de Paris
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Department |
Hopital Tenon - Urgences Nephrologiques et Transplantation Renale
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Street address |
4 rue de la Chine
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City |
Paris |
ZIP/Postal code |
75020 |
Country |
France |
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Platforms (1) |
GPL13607 |
Agilent-028004 SurePrint G3 Human GE 8x60K Microarray (Feature Number version) |
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Samples (26)
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Relations |
BioProject |
PRJNA352832 |