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Series GSE156686 Query DataSets for GSE156686
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
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.
Overall design Single cell and bulk transcriptome analysis of folic acid-induced neprophathy kidneys
Web link
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
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Submission date Aug 23, 2020
Last update date Dec 09, 2020
Contact name Jihwan Park
Street address 123 Cheomdangwagi-ro
City Bukgu
State/province Gwangju
ZIP/Postal code 61005
Country South Korea
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (8)
GSM4742231 FAN1_scRNAseq
GSM4742232 FAN2_scRNAseq
GSM4742233 control1_RNAseq
BioProject PRJNA658770
SRA SRP278504

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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
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Raw data are available in SRA
Processed data are available on Series record

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