|
| Status |
Public on Jun 01, 2016 |
| Title |
TA14 |
| Sample type |
RNA |
| |
|
| Source name |
TA14
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: tubular adenomas
braf: wt
cimp: neg
cms: CMS2
|
| Treatment protocol |
5x20 μm frozen tissue sections were cut using a cryotome and stored at -80°C until further use.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the AllPrep DNA/RNA/miRNA Universal Kit from Qiagen.
|
| 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 tubular adenoma
|
| 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) |
| GSE79460 |
TGFβ signaling directs serrated adenomas to the mesenchymal colorectal cancer subtype [adenomas] |
| GSE79462 |
TGFβ signaling directs serrated adenomas to the mesenchymal colorectal cancer subtype |
|
