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Series GSE33085 Query DataSets for GSE33085
Status Public on Nov 30, 2011
Title Transcriptome analysis of adult retina cell types.
Organism Mus musculus
Experiment type Expression profiling by array
Summary Brain circuits are assembled from a large variety of morphologically and functionally diverse cell types. It is not known how the intermingled cell types of individual brain regions differ in their expressed genomes. Here we describe an atlas of cell type transcriptomes of the adult retina. We found that each adult cell type expresses a specific set of genes, including a unique set of transcription factors, forming a “barcode” for cell identity. Cell type transcriptomes carry enough information to categorize cells into corresponding morphological classes and types. Surprisingly, several barcode genes are eye disease-associated genes that we demonstrate to be specifically expressed not only in photoreceptors but also in particular retinal circuit elements such as inhibitory neurons as well as in retinal microglia. Our data suggest that distinct cell types of individual brain regions are characterized by marked differences in their expressed genomes.
We assembled a library of 22 transgenic mouse lines in which each line had a group of retinal cells marked with fluorescent proteins. We built up the library with the purpose of having some mouse lines in which single retinal cell types and others in which combinations of types from a single class are labeled. The library had mouse lines with labeled cells representing each of the six retinal cell classes. Retinal cells were characterized by physiological recording and immunohistochemical staining. We isolated 200 fluorescent protein-labeled retinal cells (“cell groups”) from at least three different mice of each mouse line by fluorescence-activated cell sorting. The transcripts of each cell group of these biological triplicates were independently amplified in batches. Each batch contained an internal control cell group from the Arc-line.
 
Overall design We performed gene expression analysis of 22 transgenic mouse lines. All experiments were performed in biological triplicates. Gene expression analysis was performed in 3 batches. Arc is the batch control (1st, 2nd, 3rd). B2 was repeated 3 times.
 
Contributor(s) Siegert S, Roska B, Cabuy E
Citation(s) 22267162
Submission date Oct 19, 2011
Last update date Mar 04, 2019
Contact name Sandra Siegert
E-mail(s) ssiegert@mit.edu
Organization name Friedrich Miescher Institute
Street address Maulbeerstrasse 66
City Basel
ZIP/Postal code 4058
Country Switzerland
 
Platforms (1)
GPL6246 [MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [transcript (gene) version]
Samples (78)
GSM819273 retina, adult, b2 1st, biological rep1
GSM819274 retina, adult, b2 1st, biological rep2
GSM819275 retina, adult, b2 1st, biological rep3
This SubSeries is part of SuperSeries:
GSE33089 Retina cells
Relations
BioProject PRJNA155525

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE33085_RAW.tar 268.7 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table
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