|
| Status |
Public on Feb 24, 2012 |
| Title |
human cancer_T84_colon2 |
| Sample type |
RNA |
| |
|
| Source name |
T84
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: cancer cells
cell line: T84
|
| Growth protocol |
Intestinal SEMFs were cultured under published conditions. Human cancer cells were grafted subcutaneousely in combination with murine ISEMFs and grown in immunodeficient NOD/SCID mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard 3' IVT EXPRESS Affymetrix protocol from 0.1 ug total RNA (GENE CHIP 3' IVT EXPRESS User Manual, P/N702646 REV8, Affymetrix)
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip MOUSE Genome 430 2.0 Arrays or HUMAN Genome U133 plus2 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the AFFYMETRIX GENE CHIP SCANNER 3000.
|
| Description |
Gene expression data from cancer cells
|
| Data processing |
Microarray expression: RMA (bioconductor) with custom CDFs for background elimination and normalization in adddition to array normalization using Cluster
|
| |
|
| Submission date |
Feb 28, 2011 |
| Last update date |
Feb 24, 2012 |
| Contact name |
Janghee Woo |
| E-mail(s) |
[email protected]
|
| Organization name |
Dana-Farber Cancer Institute
|
| Street address |
44 Binney st.
|
| City |
Boston |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL13232 |
| Series (1) |
| GSE27564 |
Gene expression profiles of subepithelial myofibroblasts from mouse ileum or colon, implanted together with human cancer cells in mouse xenografts |
|
