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| Status |
Public on Sep 12, 2017 |
| Title |
Transcriptome profile of a murine renal bilateral ischemia reperfusion model 2 hours to 12 months post injury |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Acute kidney injury (AKI) is associated with an increased risk of chronic kidney disease (CKD). To extend our understanding of renal repair, and its limits, we performed a detailed molecular characterization of a murine ischemia reperfusion injury (IRI) model for 12 months post injury. RNA-seq analysis highlights a cascade of temporal specific gene expression patterns related to tubular injury/repair, fibrosis, innate and adaptive immunity.
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| Overall design |
Murine renal bilateral ischemia reperfusion injury (IRI) was performed on 10- to 12-week-old (25- 28g) C57Bl/6NCrl male mice (Charles River). The mice were anesthetized with an intraperitoneal injection of a ketamine/xylazine mix (105 mg ketamine/kg; 10 mg xylazine/kg). The body temperature was maintained at 36.5~ 37°C throughout the procedure. Kidneys were exposed by a midline abdominal incision and both renal pedicles were clamped for 21 min using non-traumatic microaneurysm clips. Sham-operated mice underwent the same procedure except for clamping of the pedicles. Cohorts of 3 to 4 biological replicates for injured, sham and uninjured kidneys were collected for RNA-seq at 10 different time points following IRI: 2, 4 hours; 1, 2, 3 days; 1, 2, 4 weeks; and 6, 12 months.
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| Contributor(s) |
Liu J, Kumar S, McMahon AP |
| Citation(s) |
28931758 |
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| Submission date |
May 08, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Jing Liu |
| E-mail(s) |
jing.liu@med.usc.edu
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| Phone |
3034428077
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| Organization name |
University of Southern California
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| Department |
Department of Regenerative Medicine & Stem Cell Biology
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| Lab |
Andy McMahon lab
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| Street address |
1425 San Pablo St.
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| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90033 |
| Country |
USA |
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| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (49)
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| Relations |
| BioProject |
PRJNA385766 |
| SRA |
SRP106605 |
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