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| Status |
Public on Aug 15, 2014 |
| Title |
MiRNA expression data from SOX2 knock-out 2102Ep and NTera-2 human embryonal carcinoma cell lines |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by RT-PCR
Other
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| Summary |
SOX2 is an oncogene and a core pluripotency transcription factor. SOX2 has multiple roles in various malignancies, in the maintenance 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 the differential expression of 754 unique mature miRNAs. This revealed the deregulation of many oncomiRs, tumour suppressor miRNAs and developmental miRNAs, including those belonging to the C19MC cluster.
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| 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 Applied Biosystems TaqMan Low Density Arrays A/B cards to measure mature miRNA expression in three biological replicates of each cell line which we compared to miRNA 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.
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| 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 14, 2014 |
| Last update date |
Oct 22, 2014 |
| 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
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| City |
Dublin |
| ZIP/Postal code |
Dublin 7 |
| Country |
Ireland |
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| Platforms (1) |
| GPL18942 |
Applied Biosystems Taqman Low Density Array Human microRNA Card A+B Set v3.0 |
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| Samples (12)
|
| GSM1436075 |
2102Ep cells negative control, biological replicate 1_miRNA |
| GSM1436076 |
2102Ep cells negative control, biological replicate 2_miRNA |
| GSM1436077 |
2102Ep cells negative control, biological replicate 3_miRNA |
| GSM1436078 |
2102Ep cells SOX2 siRNA, biological replicate 1_miRNA |
| GSM1436079 |
2102Ep cells SOX2 siRNA, biological replicate 2_miRNA |
| GSM1436080 |
2102Ep cells SOX2 siRNA, biological replicate 3_miRNA |
| GSM1436081 |
NTera-2 cells negative control, biological replicate 1_miRNA |
| GSM1436082 |
NTera-2 cells negative control, biological replicate 2_miRNA |
| GSM1436083 |
NTera-2 cells negative control, biological replicate 3_miRNA |
| GSM1436084 |
NTera-2 cells SOX2 siRNA, biological replicate 1_miRNA |
| GSM1436085 |
NTera-2 cells SOX2 siRNA, biological replicate 2_miRNA |
| GSM1436086 |
NTera-2 cells SOX2 siRNA, biological replicate 3_miRNA |
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| This SubSeries is part of SuperSeries: |
| GSE59381 |
Differential gene and microRNA expression in two SOX2-silenced human embryonal carcinoma cell lines |
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| Relations |
| BioProject |
PRJNA255222 |
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