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Series GSE107585 Query DataSets for GSE107585
Status Public on Apr 05, 2018
Title Comprehensive single cell RNAseq analysis of the kidney reveals novel cell types and unexpected cell plasticity
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We characterized 57,979 cells from healthy mouse kidneys using unbiased single-cell RNA sequencing. We show that genetic mutations that present with similar phenotypes mostly affect genes that are expressed in a single unique differentiated cell type. On the other hand, we found unexpected cell plasticity of epithelial cells in the final segment of the kidney (collecting duct) that is responsible for final composition of the urine. Using computational cell trajectory analysis and in vivo linage tracing, we found that, intercalated cells (that secrete protons) and principal cells (that maintain salt, water and potassium balance) undergo a Notch mediated interconversion via a newly identified transitional cell type. In disease states this transition is shifted towards the principal cell fate. Loss of intercalated cells likely contributes to metabolic acidosis observed in kidney disease.
 
Overall design Single cell RNA sequencing for 57,979 cells from 7 healthy mouse kidneys
 
Contributor(s) Park J, Shrestha R, Qiu C, Kondo A, Huang S, Werth M, Li M, Barasch J, Suszták K
Citation(s) 29622724
Submission date Dec 01, 2017
Last update date Mar 19, 2019
Contact name Jihwan Park
E-mail jihwan.park@postech.ac.kr
Organization name University of Pensylvania
Street address 415 CRB, 415 Curie Blvd
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (7)
GSM2871706 normal1
GSM2871707 normal2
GSM2871708 normal3
Relations
BioProject PRJNA420723
SRA SRP125999

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE107585_Mouse_kidney_single_cell_datamatrix.txt.gz 52.6 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data is available on Series record

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