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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 01, 2023 |
| Title |
MicroRNA-mediated attenuation of branched-chain amino acid catabolism promotes ferroptosis in chronic kidney disease [CLIP-seq] |
| Organism |
Mus musculus |
| Experiment type |
Other
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| Summary |
Chronic kidney disease (CKD) complicates cisplatin-based chemotherapy of cancer patients. Here we investigate microRNA (miRNA)-regulated transcriptomic activity to unveil biological processes associated with cisplatin-induced kidney injury. Implementing chimeric-eCLIP-seq approach to a mouse model for cisplatin-induced CKD, we identify direct pairs of miRNA and their target messenger RNA in the injured kidney. We find a dedicated transcriptomic program directed by a group of miRNAs that alter metabolic pathways centered on mitochondria in the injured kidneys. Specifically, cisplatin-induced miRNA, miR-429-3p suppresses the mitochondria pathway that catalyzes branched-chain amino acid (BCAA), eventually leading to lipid peroxidation-dependent cell death, called ferroptosis. Thus, the identification of miRNA-429-3p-mediated stimulation of ferroptosis suggests a therapeutic potential for BCAA pathway modulation in ameliorating CKD and cisplatin-associated nephrotoxicity.
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| Overall design |
To investigate the miRNA effect on CKD, cisplatin induced CKD mouse and control mouse were prepared.
eCLIPseq (to obtain miRNA-mRNA interaction through Ago2 complex), small RNAseq (to obtain miRNA), and RNAseq (to obtain mRNA) were performed.
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| Contributor(s) |
Sone H, Lee TJ, Lee BR, Heo D, Oh S, Kwon S |
| Citation(s) |
38016961 |
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| Submission date |
Sep 09, 2023 |
| Last update date |
Dec 13, 2023 |
| Contact name |
Sang-Ho Kwon |
| E-mail(s) |
kkwon@augusta.edu
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| Phone |
706-721-0379
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| Organization name |
Augusta Univeristy
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| Department |
Cellular Biology and Anatomy
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| Street address |
1120 15th Street
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| City |
Augusta |
| State/province |
Georgia |
| ZIP/Postal code |
30912 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (12)
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| GSM7770906 |
eCLIP, IP, Cisplatin 1 |
| GSM7770907 |
eCLIP, IP, Cisplatin 2 |
| GSM7770908 |
eCLIP, IP, Cisplatin 3 |
| GSM7770909 |
eCLIP, Background, Control 1 |
| GSM7770910 |
eCLIP, Background, Control 2 |
| GSM7770911 |
eCLIP, Background, Control 3 |
| GSM7770912 |
eCLIP, Background, Cisplatin 1 |
| GSM7770913 |
eCLIP, Background, Cisplatin 2 |
| GSM7770914 |
eCLIP, Background, Cisplatin 3 |
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| This SubSeries is part of SuperSeries: |
| GSE242809 |
MicroRNA-mediated attenuation of branched-chain amino acid catabolism promotes ferroptosis in chronic kidney disease. |
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| Relations |
| BioProject |
PRJNA1014776 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE242806_RAW.tar |
853.0 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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