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| Status |
Public on Jan 20, 2016 |
| Title |
RNA-seq analysis of dickkopf-3 knockout and C57Bl/6 mice kidneys 7 days after unilateral ureteral obstruction |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Renal tubular atrophy and interstitial fibrosis are common hallmarks of etiologically different progressive chronic kidney diseases (CKD) that eventually result in organ failure. We identify Dickkopf-3 (Dkk3) as a stress-induced, tubular epithelia-derived mediator of kidney fibrosis. Genetic as well as antibody-mediated abrogation of Dkk3 led to reduced tubular atrophy and decreased interstitial matrix accumulation in two mouse models of renal fibrosis. This was accompanied by an amplified, anti-fibrogenic, inflammatory response within the injured kidney. Mechanistically, Dkk3 deficiency led to diminished canonical Wnt/β-catenin signaling in stressed tubular epithelial cells. To identify global changes in gene expression due to the lack of Dkk3, whole-transcriptome sequencing (mRNA-seq) was performed on RNA isolated from kidneys of Wt and Dkk3-/- mice 7 days after UUO.
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| Overall design |
Kidneys of Dkk3-/- and C57Bl/6 mice were harvested 7 days after UUO. Total RNA was isolated and each Sample was prepared as a 10-plex, which was sequenced on three lanes. HiSeq 2000 50bp SR run was used.
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| Contributor(s) |
Federico G, Hielscher T, Mathow D |
| Citation |
Giuseppina Federico, Michael Meister, Daniel Mathow, Gunnar H. Heine, Gerhard Moldenhauer, Zoran V. Popovic, Viola Nordstr m, Annette Kopp-Schneider, Thomas Hielscher, Peter J. Nelson, Franz Schaefer, Stefan Porubsky, Danilo Fliser, Bernd Arnold, and Hermann-Josef Grone. Tubular Dickkopf-3 promotes the development of renal atrophy and fibrosis. JCI Insight. 2016;1(1):e84916. http://dx.doi.org/10.1172/jci.insight.84916
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| Submission date |
Dec 11, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Carsten Jäckel |
| Organization name |
Klinikum der Universität München, Klinische Biochemie
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| Department |
Klinische Biochemie
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| Street address |
Schillerstr 42
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| City |
München |
| ZIP/Postal code |
80336 |
| Country |
Germany |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (6)
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| GSM1970287 |
Renal tissue, 7 days after UUO, Dkk3-/-, biological replicate 1 |
| GSM1970288 |
Renal tissue, 7 days after UUO, Dkk3-/-, biological replicate 2 |
| GSM1970289 |
Renal tissue, 7 days after UUO, Dkk3-/-, biological replicate 3 |
| GSM1970290 |
Renal tissue, 7 days after UUO, C57Bl/6, biological replicate 1 |
| GSM1970291 |
Renal tissue, 7 days after UUO, C57Bl/6, biological replicate 2 |
| GSM1970292 |
Renal tissue, 7 days after UUO, C57Bl/6, biological replicate 3 |
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| Relations |
| BioProject |
PRJNA305722 |
| SRA |
SRP067265 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE75925_RNAseq_analysis_Federico.xlsx |
2.5 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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