|
| Status |
Public on Nov 14, 2009 |
| Title |
VMC Patient 50 |
| Sample type |
RNA |
| |
|
| Source name |
Vanderbilt University Medical Center
|
| Organism |
Homo sapiens |
| Characteristics |
age: 38
gender: female
ethnicity: caucasian
ajcc_stage: 4
grade: 2 - Moderately differentiated(MD).1 - Well differentiated (WD) - Moderate to poorly differentiated (MPD)
overall_event (death from any cause): death
dfs_event (disease free survival; cancer recurrence): recurrence
overall survival follow-up time: 12.6575342465753
dfs_time: 0
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Qiagen RNeasy kit.
|
| Label |
biotin
|
| Label protocol |
Standard Affymetrix protocols were used.
|
| |
|
| Hybridization protocol |
Standard Affymetrix protocols for hybridization to the Affy HGU133 2.0 plus array were used.
|
| Scan protocol |
GeneChip Scanner was used for scanning and generating the raw .CEL files.
|
| Description |
Gene expression
|
| Data processing |
Bioconductor's affy package was used for RMA normalization and raw data processing using default settings for background correction and normalization. Cox regression hazards model was applied to the processed data using the survival package. All analyses were performed using R software.
|
| |
|
| Submission date |
Aug 06, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Pengcheng Lu |
| E-mail(s) |
pengcheng.lu@vanderbilt.edu
|
| Organization name |
Vanderbilt University
|
| Street address |
2200 Pierce Avenue
|
| City |
Nashville |
| State/province |
TN |
| ZIP/Postal code |
37232 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE17537 |
Metastasis Gene Expression Profile Predicts Recurrence and Death in Colon Cancer Patients (VMC Samples) |
| GSE17538 |
Experimentally Derived Metastasis Gene Expression Profile Predicts Recurrence and Death in Colon Cancer Patients |
|
| Relations |
| Reanalyzed by |
GSE119087 |
