|
| Status |
Public on Jul 31, 2020 |
| Title |
Ependymoma_primary (318-1) |
| Sample type |
RNA |
| |
|
| Source name |
318-1
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: brain tumor (ependymoma)
tumor type: primary
|
| Extracted molecule |
total RNA |
| Extraction protocol |
[collection protocol] Tumor samples were snap frozen in liquid nitrogen or transferred to RNAlater immediately after surgical removal as part of patient care. All samples were collected with appropriate IRB approval (COM-IRB#95-500 and 09-0906 )
RNeasy (Qiagen) extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 11.5 ug of cRNA were hybridized for 16 hr at 45C on GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450
|
| Scan protocol |
GeneChips were scanned using the Affymetrix Gene Chip Scanner 7G.
|
| Data processing |
Microarray .CEL file data was background corrected and normalized using the gcRMA algorithm, resulting in log 2 expression values.
|
| |
|
| Submission date |
Jan 29, 2019 |
| Last update date |
Jul 31, 2020 |
| Contact name |
Andrew M Donson |
| E-mail(s) |
andrew.donson@cuanschutz.edu
|
| Phone |
303 724 4012
|
| Organization name |
CU Anschutz Medical Campus
|
| Department |
Pediatrics
|
| Lab |
RC1 North, P18-4401M
|
| Street address |
12800 E 19th Ave
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80010 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE125861 |
Ependymoma subpopulation lineages underlie clinical classification and outcome (microarray data set) |
| GSE126025 |
Ependymoma subpopulation lineages underlie clinical classification and outcome |
|
| Relations |
| Reanalysis of |
GSM1620196 |
