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Series GSE163218 Query DataSets for GSE163218
Status Public on Dec 14, 2023
Title Esophageal progenitor cell plasticity; a 3D organotypic model of epithelial regeneration
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Epithelial stem cells are capable of remarkable plasticity, facilitating efficient regenerative responses following damage. Here, we present a versatile model of ectopic niche regeneration that provides evidence of a switch in epithelial stem cell identity as a response to foreign microenvironmental signals. A combination of 3D organotypic cultures, 3D confocal imaging and Next-Generation Sequencing reveal events of epithelial plasticity during the reepithelialization of denuded stroma. In this study we perform a temporal analysis that provides new insights on the mechanisms driving cell fate flexibility in adult epithelial stem cells.
Overall design Single cell RNA sequencing of oesophageal epithelial cells cultured in a 3D organotypic system that recapitulates wound healing. Cells growing over their native stroma were compared to those growing over the foreign stroma of the dermis. The temporality of the process was captured by sequencing cells at day 3 and 10 into the regeneration process. For each of the four conditions, at least 3 biological replicates were performed.
Contributor(s) Bejar MT, Jimenez-Gomez P, Moutsopoulos I, Mohorianu I, Alcolea MP
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Submission date Dec 15, 2020
Last update date Dec 14, 2023
Contact name Irina Mohorianu
Organization name University of Cambridge
Department Wellcome-MRC Cambridge Stem Cell Institute
Street address Puddicombe Way
City Cambridge
ZIP/Postal code CB2 0AW
Country United Kingdom
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (14)
GSM4975212 72h OE 1
GSM4975213 72h OE 2
GSM4975214 72h OE 3
BioProject PRJNA685350
SRA SRP297991

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Supplementary file Size Download File type/resource
GSE163218_barcodes.tsv.gz 542.4 Kb (ftp)(http) TSV
GSE163218_features.tsv.gz 272.8 Kb (ftp)(http) TSV
GSE163218_matrix.mtx.gz 1.4 Gb (ftp)(http) MTX
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Raw data are available in SRA
Processed data are available on Series record

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