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Series GSE106340 Query DataSets for GSE106340
Status Public on Jan 31, 2019
Title Optimal-transport analysis of single-cell gene expression identifies developmental trajectories in reprogramming I
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We collected single or duplicate samples at the various time points, generated single cell suspensions and performed scRNA-Seq. We also collected samples from established iPSC lines reprogrammed from the same MEFs, maintained in either 2i or serum conditions. Overall, we profiled 68,339 cells to an average depth of 38,462 reads per cell. After discarding cells with less than 1,000 genes detected, we retained a total of 65,781 cells, with a median of 2,398 genes and 7,387 unique transcripts per cell.
 
Overall design We collected scRNA-seq profiles of 65,781 cells across a 16-day time course of iPSC induction, under two conditions
 
Contributor(s) Shu J, Tabaka M
Citation(s) 30712874
Submission date Oct 30, 2017
Last update date May 15, 2019
Contact name Marcin Tabaka
E-mail(s) mtabaka@ichf.edu.pl
Organization name International Centre for Translational Eye Research
Lab Tabaka Lab
Street address Kasprzaka 44/52
City Warsaw
ZIP/Postal code 01224
Country Poland
 
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (22)
GSM2836267 D0
GSM2836268 D2-1
GSM2836269 D2-2
This SubSeries is part of SuperSeries:
GSE122662 Optimal-transport analysis of single-cell gene expression identifies developmental trajectories in reprogramming
Relations
BioProject PRJNA417182
SRA SRP124071

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
GSE106340_RAW.tar 488.3 Mb (http)(custom) TAR (of MTX, TSV)
GSE106340_expression.matrix.flt.nrm.10X.txt.gz 753.0 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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