|
| Status |
Public on Mar 23, 2013 |
| Title |
Cancer cell only rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Capan1 only
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Capan1
cell type: Well differentiated human pancreatic cancer cells
exposed to: pancreatic stellate cell line (PS1)
|
| Growth protocol |
Pancreatic stellate cells were embedded within a gel matrix composing collagen type I and Matrigel, and cancer cells were seeded on top. The gel was lifted on to metal grid after 24 hourd and fed from below. Gels were harvested on day 10 and frozen sections obtained. The cancer cell layer on top of the gel was captured by laser microdissection for RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from laser captured Capan1 cells by using RNaqeous micro kit according to manufacturer's instruction
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays.
|
| |
|
| Hybridization protocol |
Standard illumina hybridisation protocol
|
| Scan protocol |
Standard illumina illumina scanning protocol
|
| Description |
c1
Replicate 1
|
| Data processing |
Quality Control and normalization were performed using BeadStudio (Genome Studio expression analysis module, Genome Studio v2011.1, Gene expression module 1.9.0). Statistical analyses were performed using Bioconductor (www.bioconductor.org) packages within the open source R statistical environment (www.r-project.org)
|
| |
|
| Submission date |
Mar 23, 2012 |
| Last update date |
Mar 23, 2013 |
| Contact name |
Hemant Kocher |
| E-mail(s) |
[email protected]
|
| Organization name |
Barts and the London
|
| Street address |
Charterhouse Square
|
| City |
London |
| ZIP/Postal code |
EC1M 6BQ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE36775 |
Genome wide analysis of pancreatic cancer cell gene expresison exposed to stromal pancreatic stellate cells in 3D gel matrix |
|
