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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 09, 2020 |
| Title |
Renal proximal tubule cell state and metabolism are coupled by nuclear receptors |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Kidney disease development is poorly understood due to the complex cellular interactions of more than 25 different cell types, each with specialized functions. Here, we used single cell RNA-sequencing to resolve cell type-specific and cell fraction changes in kidney disease. Whole kidney RNA-sequencing results were strongly influenced by cell fraction changes, but minimally informative to detect cell type-specific gene expression changes. Cell type-specific differential expression analysis identified proximal tubule cells (PT cells) as the key vulnerable cell type in diseased kidneys. Through unbiased cell trajectory analyses, we show that PT cell differentiation state is altered in disease state. Metabolism (fatty acid oxidation and oxidative phosphorylation) in PT cells showed the strongest and reproducible association with PT cells state. The coupling of cell state and metabolism is established by nuclear receptors such as ESRRA that not only control cellular metabolism but also the expression of PT cell-specific genes in mice and patient samples.
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| Overall design |
Single cell and bulk transcriptome analysis of folic acid-induced neprophathy kidneys
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| Web link |
https://doi.org/10.1016/j.cmet.2020.11.011
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| Contributor(s) |
Park J, Dhillon P, Hurtado C, Li L, Huang S, Zhao J, Kang H, Shrestra R, Balzer MS, Chatterjee S, Prado P, Han S, Liu H, Sheng X, Bartmanov K, Rojas JP, Prósper F, Li M, Pei L, Kim J, Monserrat N, Suszták K |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Aug 23, 2020 |
| Last update date |
Dec 09, 2020 |
| Contact name |
Jihwan Park |
| E-mail(s) |
jihwan.park724@gmail.com
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| Organization name |
GWANGJU INSTITUTE OF SCIENCE /TECHNOLOGY
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| Street address |
123 Cheomdangwagi-ro
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| City |
Bukgu |
| State/province |
Gwangju |
| ZIP/Postal code |
61005 |
| Country |
South Korea |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA658770 |
| SRA |
SRP278504 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE156686_Mouse_kidney_RNAseq_datamatrix.txt.gz |
842.9 Kb |
(ftp)(http) |
TXT |
| GSE156686_Mouse_kidney_scRNAseq_datamatrix.txt.gz |
153.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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