|
Status |
Public on Jun 01, 2016 |
Title |
TA2 untreated 1 |
Sample type |
RNA |
|
|
Source name |
TA2 untreated
|
Organism |
Homo sapiens |
Characteristics |
tissue: organoid culture of tubular adenoma organoid: TA2 treatment: control batch: 1
|
Treatment protocol |
Organoid cultures were treated for 5 days with A83-01 (control condition/untreated) or 5 ng/ml recombinant human TGF-β1.
|
Growth protocol |
Organoid cultures were isolated from patient material and cultured accodring to standard protocols.
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using the NucleoSpin RNA II kit from Macherey-Nagel.
|
Label |
biotin
|
Label protocol |
Labeling was performed according to the standard protocols of the Cologne Center for Genomics (CCG), University of Cologne, Germany.
|
|
|
Hybridization protocol |
Hybridization was performed according to the standard protocols of the Cologne Center for Genomics (CCG), University of Cologne, Germany.
|
Scan protocol |
Samples were scanned using the Gene Titan Affymetrix instrument according to the standard protocols of the Cologne Center for Genomics (CCG), University of Cologne, Germany.
|
Description |
Gene expression from colon tumor organoid TA2 untreated
|
Data processing |
Data were normalized by RMA using the Affy R package and batch effects were removed using the Combat algorithm as implemented in the sva R package
|
|
|
Submission date |
Mar 21, 2016 |
Last update date |
Jun 01, 2016 |
Contact name |
Sander Roeland van Hooff |
Organization name |
AUMC
|
Department |
Center for Experimental and Molecular Medicine (CEMM),
|
Lab |
Laboratory for Experimental Oncology and Radiobiology (LEXOR)
|
Street address |
Meibergdreef 9
|
City |
Amsterdam |
ZIP/Postal code |
1105 AZ |
Country |
Netherlands |
|
|
Platform ID |
GPL13158 |
Series (2) |
GSE79461 |
TGFβ signaling directs serrated adenomas to the mesenchymal colorectal cancer subtype [organoids] |
GSE79462 |
TGFβ signaling directs serrated adenomas to the mesenchymal colorectal cancer subtype |
|