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E-GEOD-59127 - RNA-SEQ analysis of single cells extracted from E12.5 embryonic kidneys

Status
Released on 1 August 2014, last updated on 10 December 2014
Organism
Mus musculus
Samples (86)
Protocols (3)
Description
We used micro-dissection and trypsinization techniques to isolate single cells from the 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. 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.
Experiment type
RNA-seq of coding RNA 
Contacts
GUDMAP Developers <gudmap-editors@gudmap.org>, Eric W Brunskill, Steven Potter
Citation
Single cell dissection of early kidney development: multilineage priming. Brunskill EW, Park JS, Chung E, Chen F, Magella B, Potter SS. , PMID:25053437
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-59127.idf.txt
Sample and data relationshipE-GEOD-59127.sdrf.txt
Additional data (1)E-GEOD-59127.additional.1.zip
Links