|
| Status |
Public on Mar 14, 2014 |
| Title |
Tumor sample from W2072 patient |
| Sample type |
RNA |
| |
|
| Source name |
Primary colon adenocarcinoma cells
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: Tumor
individual id: W2072
Stage: IIA
location: Left
gender: Female
age: 67
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from tissue samples using a miRCURY™ RNA Isolation Kit (Exiqon) according to manufacturer’s protocol, quantified by NanoDrop® ND-1000 Spectrophotometer (Nanodrop technologies, Wilmington, DE) and stored at -80°C. The quality of these RNA samples was further checked using RNA 600 Nano chip (Agilent Bioanalyzer) and was confirmed by gel electrophoresis.
|
| Label |
biotin
|
| Label protocol |
RNA was labeled with the 3'-IVT Labeling Kit (Affymetrix, Santa Clara, USA) following the manufacturer's protocols.
|
| |
|
| Hybridization protocol |
RNA hybridization was performed through the Affymetrix Human Genome U219 microarrays, using the 96-array plate format on the GeneTitan system and following the manufacturer's recommendations (Affymetrix, Santa Clara, USA). A blocked experimental design was implemented to avoid biases.
|
| Scan protocol |
Human Genome U219 array plates were scanned according to manufacturer's recommendations (Affymetrix, Santa Clara, USA).
|
| Data processing |
The Robust Multi-array Average (RMA) algorithm was used for data normalization through R and Bioconductor.
|
| |
|
| Submission date |
Feb 05, 2013 |
| Last update date |
Aug 31, 2023 |
| Contact name |
Victor Moreno |
| E-mail(s) |
v.moreno@iconcologia.net
|
| Organization name |
Catalan Institute of Oncology
|
| Department |
Oncology Data Analytics Program
|
| Street address |
Granvia 199
|
| City |
L'Hospitalet de Llobregat |
| State/province |
Barcelona |
| ZIP/Postal code |
08908 |
| Country |
Spain |
| |
|
| Platform ID |
GPL13667 |
| Series (2) |
| GSE44076 |
Gene expression data from healthy, adjacent normal and tumor colon cells |
| GSE166427 |
Healthy, adjacent normal and tumor colon cells |
|
