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Series GSE59127 Query DataSets for GSE59127
Status Public on Aug 01, 2014
Title RNA-SEQ analysis of single cells extracted from E12.5 embryonic kidneys.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We used micro-dissection and trypsinization techniques to isolate single cells from the Embryonic day 12.5 (E12.5) total 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 E12.5 kidneys are dissected; the kidneys are made into a single cell suspension via trypsinization. A subset of these cells is analysed individually via Fluidigm C1 single cell analysis. The long term goal is to generate a single cell resolution transcriptional atlas of the developing kidney.
Web link http://gudmap.org/gudmap/pages/ngd_series.html?seriesId=18
 
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
E-mail(s) gudmap-db@gudmap.org
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 (86)
GSM1428991 E12.5 Kidney Single Cell RNA-Seq-cell 1
GSM1428992 E12.5 Kidney Single Cell RNA-Seq-cell 9
GSM1428993 E12.5 Kidney Single Cell RNA-Seq-cell 17
Relations
BioProject PRJNA254486
SRA SRP044133

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
GSE59127_E12.5_expressed_genes_RPKM.txt.gz 3.4 Mb (ftp)(http) TXT
GSE59127_E12.5_induced_vs_uninduced_progenitors_RPKM_data.txt.gz 66.7 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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