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Series GSE22539 Query DataSets for GSE22539
Status Public on Jun 24, 2010
Title Gene expression profile of the SV40-immortalized human corneal epithelial cells
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Microarray was used to study global gene expression of a cell culture model based on SV40-immortalized human corneal epithelial (iHCE) cells. The gene expression profile of the cell line was compared to the normal human corneal epithelium. Affymetrix HG-U133A GeneChips® were used for microarray experiments and results were validated by performing RT-qPCR for selected genes. iHCE was found to over- and under-express 22 % and 14 % of the annotated genes, respectively. The results of this study suggest that differences between iHCE cells and normal corneal epithelium are substantial and therefore the use of these cells in corneal research should be considered with caution.
 
Overall design SV40-immortalized human corneal epithelial (iHCE) cells were cultured on collagen coated permeable supports for one week using standard culture conditions. Subsequently the apical medium was removed and culturing was continued at the air-liquid interface which allows cells to stratify. Trans-epithelial electrical resistance was followed and total RNA was extracted from cultures with resistance > 300 Ω x cm2. RNA was amplified, labeled with biotin, fragmented and hybridized to the HG-U133A GeneChips® (Affymetrix) according to the protocol of the manufacturer. Three separate experiments with samples from three independent culture batches (iHCE1, iHCE2, iHCE3) were performed. The Global gene expression profile of iHCE was compared to previously published human corneal epithelial tissue (GSE5543) data.
 
Contributor(s) Greco D, Vellonen K, Turner HC, Häkli M, Tervo T, Auvinen P, Wolosin JM, Urtti A
Citation(s) 21139686
Submission date Jun 23, 2010
Last update date Aug 10, 2018
Contact name Kati-Sisko Vellonen
E-mail(s) Kati-Sisko.Vellonen@helsinki.fi
Phone +358-9-19159520
Fax +358-9-19159725
Organization name University of Helsinki, Faculty of Pharmacy
Department Centre for Drug Research
Street address Viikinkaari 5 E (P.O.Box 56)
City Helsinki
ZIP/Postal code FIN-00014 University of Helsinki
Country Finland
 
Platforms (1)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
Samples (3)
GSM559564 SV40-immortalized_human_corneal_epithelial_cells_rep1
GSM559565 SV40-immortalized_human_corneal_epithelial_cells_rep2
GSM559566 SV40-immortalized_human_corneal_epithelial_cells_rep3
Relations
BioProject PRJNA128461

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
GSE22539_RAW.tar 6.9 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

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