|
| Status |
Public on Jan 14, 2013 |
| Title |
CRC_02 |
| Sample type |
RNA |
| |
|
| Source name |
Large Intestine, Adenocarcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
subtype: 2.1
kras.mutation: N
braf.mutation: N
apc.mutation: Y
p53.mutation: N
pik3ca.mutation: N
pten.mutation: N
microsatellite.status: MSI
gender: Male
ethnicity: Caucasian
|
| Treatment protocol |
none
|
| Growth protocol |
none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples. Integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared using the Affymetrix 3’ IVT Express kit with 100 ng input total RNA, essentially according to the instructions included with the kit.
|
| |
|
| Hybridization protocol |
Fragmentation, hybridization and scanning were conducted according to the Affymetrix Expression Analysis Technical Manual, following the procedures for format 49 arrays.
|
| Scan protocol |
Standard Affymetrix procedures using the GeneChip Scanner GS3000 and GeneChip Operating Software (GCOS) were utilized.
|
| Description |
Sample name: EA09076_93321_H133+_CRC-CL-002
|
| Data processing |
Data were analyzed with R/Bioconductor; RMA expression values were calculated using justRMA as implemented in the affy package version 1.24.2; probe sets were annotated using the hgu133plus2.db version 2.3.5
|
| |
|
| Submission date |
Feb 16, 2012 |
| Last update date |
Jan 14, 2013 |
| Contact name |
Garry Beran |
| E-mail(s) |
[email protected]
|
| Organization name |
AstraZeneca
|
| Department |
Oncology
|
| Street address |
Mereside, Alderley Park
|
| City |
Macclesfield |
| ZIP/Postal code |
SK10 4TG |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE35896 |
Gene expression data from 62 colorectal cancers |
|
