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Series GSE59129 Query DataSets for GSE59129
Status Public on Aug 01, 2014
Title RNA-SEQ analysis of single cells extracted from the metanephric mesenchyme of E11.5 Crym-EGFP transgenic mice
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We used micro-dissection with FACS sorting techniques to isolate single cells from the metanephric mesenchyme of the Embryonic day 11.5 (E11.5) developing kidney. A subset of these single cell populations is analysed individually via Fluidigm single cell analysis. This analysis will determine the transcriptional profile of each cell type, identify compartment specific transcripts, compartment specific transcript isoforms and cell-type specific long-noncoding RNAs. In addition the unbiased nature of RNA-SEQ will potentially identify novel transcripts that have not been annotated in the database.
Overall design Kidneys are harvested from Tg(Crym-EGFP)GF82Gsat mice. Single cells are extracted from E11.5 metanephric mesenchyme using manual micro-dissection techniques. A subset of these cells is analyzed individually via Fluidigm single cell analysis. The long term goal is to generate a transcriptional atlas of the developing kidney.
Web link
Contributor(s) Potter A, Brunskill EW, Potter S
Citation(s) 25053437
Submission date Jul 07, 2014
Last update date May 15, 2019
Contact name GUDMAP Developers
Phone +44 131 651 8500
Organization name IGMM MRC Human Genetics Unit
Lab GUDMAP Database Group
Street address Crewe Road
City Edinburgh
ZIP/Postal code EH4 2XU
Country United Kingdom
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (49)
GSM1429178 E11.5 MM Single Cell RNA-Seq-cell 1
GSM1429179 E11.5 MM Single Cell RNA-Seq-cell 26
GSM1429180 E11.5 MM Single Cell RNA-Seq-cell 51
BioProject PRJNA254485
SRA SRP044134

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

Supplementary file Size Download File type/resource
GSE59129_E11.5_expressed_genes_RPKM_data.txt.gz 1.9 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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