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Series GSE145516 Query DataSets for GSE145516
Status Public on Feb 20, 2020
Title Platform effects on regeneration by pulmonary basal cells as evaluated by single-cell RNA sequencing [array]
Organism Rattus norvegicus
Experiment type Expression profiling by array
Summary Cell-based therapies have shown promise for treating myriad chronic pulmonary diseases through direct application of epithelial progenitors or by way of engineered tissue grafts or whole organs. To elucidate environmental effects on epithelial regenerative outcomes in vitro, we isolated and cultured a population of pharmacologically expanded basal cells (peBC) from rat tracheas. At peak basal marker expression we simultaneously split peBC into four in vitro platforms – organoid, air-liquid interface (ALI), engineered trachea, and engineered lung. Following differentiation, these samples were evaluated using single-cell RNA sequencing (scRNAseq) and computational pipelines were developed to compare samples both globally and at the population level. A sample of native rat tracheal epithelium was also evaluated by scRNAseq as a control for engineered epithelium. Overall this work identifies platform-specific effects that support the use of engineered models to achieve the most physiologic differential outcomes in pulmonary epithelial regenerative applications.
 
Overall design Comparison of three primary rat tracheal epithelial scrapings plated into BEGM or EpiX media and grown for 8 days
 
Contributor(s) Greaney AM
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Submission date Feb 19, 2020
Last update date Feb 23, 2020
Contact name Allison M Greaney
E-mail(s) allison.greaney@yale.edu
Organization name Yale University
Department Biomedical Engineering
Street address 10 Amistad St
City New Haven
State/province CT
ZIP/Postal code 06511
Country USA
 
Platforms (1)
GPL23040 [Clariom_S_Rat] Affymetrix Clariom S Assay, Rat (Includes Pico Assay)
Samples (6)
GSM4320000 1B_BEGM1
GSM4320001 1E_EpiX1
GSM4320002 3B_BEGM3
This SubSeries is part of SuperSeries:
GSE145518 Platform effects on regeneration by pulmonary basal cells as evaluated by single-cell RNA sequencing
Relations
BioProject PRJNA607458

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
GSE145516_RAW.tar 8.5 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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