|
| Status |
Public on Aug 15, 2014 |
| Title |
Gene expression data from SOX2 knock-out 2102Ep and NTera-2 human embryonal carcinoma cell lines |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
SOX2 is an oncogene and a core pluripotency transcription factor. SOX2 has multiple roles in various malignancies, in the maintainance of pluripotency and during various stages of embryonic development. Human embryonal carcinoma cells express SOX2 and the loss of this results in their differentiation.
We silenced SOX2 in two human embryonal carcinoma cell lines and measured whole-genome mRNA expression. Many genes related to embryogenesis and tissue morphogensis were upregulated. Other upregulated genes were markers of mesodermal development and epithelial-to-mesenchymal transition.
|
| |
|
| Overall design |
A specific and validated siRNA against SOX2 was chemically transfected in undifferentiated 2102Ep and NTera-2 embryonal carcinoma cell lines. After three days of incubation under normal growth conditions we used Affymetrix microarrays to measure whole-genome mRNA transcript expression in three biological replicates of each cell line and compared this to whole-gene expression in identical samples transfected with a non-targeting, scrambled control siRNA. SOX2 silencing was validated using qRT-PCR and Western blot prior to whole-genome expression analysis.
|
| |
|
| Contributor(s) |
Vencken SF, Sethupathy P, Blackshields G, Spillane C, ElBaruni S, Sheils O, Gallagher MF, O’Leary JJ |
| Citation(s) |
25156079 |
| |
| Submission date |
Jul 09, 2014 |
| Last update date |
Jul 26, 2018 |
| Contact name |
Sebastian Vencken |
| E-mail(s) |
venckens@tcd.ie
|
| Organization name |
University College Dublin
|
| Department |
Clinical Research Centre
|
| Street address |
Catherine McAuley Centre, Nelson Street
|
| City |
Dublin |
| ZIP/Postal code |
Dublin 7 |
| Country |
Ireland |
| |
|
| Platforms (1) |
| GPL6244 |
[HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] |
|
| Samples (12)
|
| GSM1431066 |
2102Ep cells negative control, biological replicate 1 |
| GSM1431067 |
2102Ep cells negative control, biological replicate 2 |
| GSM1431068 |
2102Ep cells negative control, biological replicate 3 |
| GSM1431069 |
2102Ep cells SOX2 siRNA, biological replicate 1 |
| GSM1431070 |
2102Ep cells SOX2 siRNA, biological replicate 2 |
| GSM1431071 |
2102Ep cells SOX2 siRNA, biological replicate 3 |
| GSM1431072 |
NTera-2 cells negative control, biological replicate 1 |
| GSM1431073 |
NTera-2 cells negative control, biological replicate 2 |
| GSM1431074 |
NTera-2 cells negative control, biological replicate 3 |
| GSM1431075 |
NTera-2 cells SOX2 siRNA, biological replicate 1 |
| GSM1431076 |
NTera-2 cells SOX2 siRNA, biological replicate 2 |
| GSM1431077 |
NTera-2 cells SOX2 siRNA, biological replicate 3 |
|
| This SubSeries is part of SuperSeries: |
| GSE59381 |
Differential gene and microRNA expression in two SOX2-silenced human embryonal carcinoma cell lines |
|
| Relations |
| BioProject |
PRJNA254789 |
Less...
More...