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Series GSE29087 Query DataSets for GSE29087
Status Public on May 25, 2011
Title Characterization of the single-cell (ES and MEF) transcriptional landscape by highly multiplex RNA-Seq
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Our understanding of the development and maintenance of tissues has been greatly aided by large-scale gene expression analysis. However, tissues are invariably complex, and expression analysis of a tissue confounds the true expression patterns of its constitutent cell types. Here we describe a novel strategy to access such complex samples. Single-cell RNA-Seq expression profiles were generated, and clustered to form a two-dimensional cell map onto which expression data was projected. The resulting cell map integrates three levels of organization: the whole population of cells, the functionally distinct subpopulations it contains, and the single cells themselves—all without need for known markers to classify cell types. The feasibility of the strategy was demonstrated by analyzing the complete transcriptomes of 92 single cells of two distinct types. We believe this strategy will enable the unbiased discovery and analysis of naturally occurring cell types during development, adult physiology and disease.
Overall design 92 single cells (48 mouse ES cells, 44 mouse embryonic fibroblasts and 4 negative controls) were analyzed by single-cell tagged reverse transcription (STRT)
Contributor(s) Linnarsson S, Islam S, Kjällquist U, Moliner A, Zajac P, Fan J, Lönnerberg P
Citation(s) 21543516
Submission date May 05, 2011
Last update date May 15, 2019
Contact name Sten Linnarsson
Phone +46852487577
Organization name Karolinska Institutet
Department MBB
Lab Molecular Neurobiology
Street address Scheeles väg 2
City Stockholm
ZIP/Postal code 17177
Country Sweden
Platforms (1)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
Samples (96)
GSM729107 Embryonic stem cell L139_ESC_1
GSM729108 Embryonic stem cell L139_ESC_2
GSM729109 Embryonic stem cell L139_ESC_3
SRA SRP006834
BioProject PRJNA140307

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE29087_L139_expression_tab.txt.gz 1.1 Mb (ftp)(http) TXT
GSE29087_README1.txt 539 b (ftp)(http) TXT 794.6 Mb (ftp)(http) MAP 863.9 Mb (ftp)(http) MAP 789.7 Mb (ftp)(http) MAP 780.1 Mb (ftp)(http) MAP 766.2 Mb (ftp)(http) MAP
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