← BioTransfer GEO Dataset Finder
GEO series

Characterization of the single-cell (ES and MEF) transcriptional landscape by highly multiplex RNA-Seq

GSE29087 Mus musculus Expression profiling by high throughput sequencing 96 samples Submitted 2011/05/25 Platform GPL9250
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.
This dataset
Download

Direct links to NCBI, no account and no request form: the whole study as GSE29087_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 96 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA140307 and SRA study SRP006834. Searching any of these in the dataset finder brings you back here.

Samples in this study

The sample list for this study is not cached yet. Press Sort into groups and it will be fetched from NCBI.

+ 96 more — browse all 96 samples with per-sample file links →

Similar datasets

Search all mouse RNA-seq datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.