|
| Status |
Public on Nov 04, 2021 |
| Title |
Patient142 |
| Sample type |
RNA |
| |
|
| Source name |
Human Colorectal cancer tissue
|
| Organism |
Homo sapiens |
| Characteristics |
subject status: colorectal cancer (CRC) patient
clinical stage: 2A
adjuvan_therapy: No
recurrence: 0
disease free survival (days): 2318
death: 0
overall survival (days): 2318
disease status: NED
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Archived CRC FFPE samples used in this study were stored at room temperature until sectioned for RNA extraction. The first 10µm of the tissue was discarded before cutting sections for RNA extraction. Five-micron sections were mounted on uncharged glass slides. Separate tissue sections from the top and bottom of the serial sections used for RNA extraction were stained with H&E for quality control from each tissue block. RNA was purified from 5µm thick tissue sections containing greater than 80% tumor using High Pure FFPE RNA Micro Kit (Roche) according to manufacturer’s instructions. A minimum of 4 sections per sample were required.
At least 20% of the RNA sample contain fragments of 300 base pairs or longer in length
|
| Label |
biotin
|
| Label protocol |
According to the GeneChip™ Human Transcriptome Array 2. 0 (Affymetrix, Santa Clara, CA) protocol.
The fragmented cDNA is labeled by terminal deoxynucleotidyl transferase (TdT) using the proprietary DNA Labeling Reagent that is covalently linked to biotin
|
| |
|
| Hybridization protocol |
According to the GeneChip™ Human Transcriptome Array 2. 0 (Affymetrix, Santa Clara, CA) protocol.
|
| Scan protocol |
According to the GeneChip™ Human Transcriptome Array 2. 0 (Affymetrix, Santa Clara, CA) protocol.
|
| Description |
RDB142
|
| Data processing |
We normalized the raw data at the gene level using Robust MultiChip Averaging (RMA) algorithm as implemented in the Affymetrix® Expression ConsoleTM Software 1.3.
|
| |
|
| Submission date |
Nov 06, 2017 |
| Last update date |
Nov 04, 2021 |
| Contact name |
Xi CHEN |
| Organization name |
University of Miami
|
| Street address |
1120 NW 14th Street
|
| City |
MIAMI |
| State/province |
FL |
| ZIP/Postal code |
33136 |
| Country |
USA |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
| GSE106584 |
Identifying biomarkers predicting response to chemotherapy in Stage II and Stage III colorectal cancer patients |
|
