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Series GSE99989 Query DataSets for GSE99989
Status Public on Dec 21, 2017
Title Epidermal Wnt signaling regulates transcriptome heterogeneity and proliferative fate in neighboring cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We performed single-cell mRNA-Seq on wild-type mouse keratinocytes co-cultured with keratinocytes in which beta-catenin was activated. We identified seven distinct cell states in cultures that had not been exposed to the beta-catenin stimulus. Using temporal single-cell analysis we reconstruct the cell fate changes induced by neighbor Wnt activation. Gene expression heterogeneity was reduced in neighboring cells and this effect was most dramatic for protein synthesis associated genes. The changes in gene expression were accompanied by a shift from a quiescent to a more proliferative stem cell state. By integrating imaging and reconstructed sequential gene expression changes during the state transition we identified transcription factors, including Smad4 and Bcl3, that were responsible for effecting the transition in a contact-dependent manner. Our data indicate that non cell autonomous Wnt/beta-catenin signaling decreases transcriptional heterogeneity and further our understanding of how epidermal Wnt signaling orchestrates regeneration and self-renewal.
 
Overall design Comparison of cells exposed to Wnt activated neighbors versus unactivated.
 
Contributor(s) Ghahramani A, Watt F, Luscombe N
Citation(s) 29334988
Submission date Jun 13, 2017
Last update date May 15, 2019
Contact name Arsham Ghahramani
E-mail(s) arsham.ghahramani@crick.ac.uk
Organization name Francis Crick Institute
Street address 1 Midland Road
City London
ZIP/Postal code NW1 1AT
Country United Kingdom
 
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (278)
GSM2667058 AG1neg_1, Untreated single cell RNA-seq
GSM2667059 AG2pos_2, Treated single cell RNA-seq
GSM2667060 AG1neg_3, Untreated single cell RNA-seq
Relations
BioProject PRJNA390285
SRA SRP109109

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
GSE99989_NCA_BCatenin_TPM_matrix.csv.gz 16.4 Mb (ftp)(http) CSV
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Raw data are available in SRA
Processed data are available on Series record

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