|
| Status |
Public on Mar 01, 2010 |
| Title |
1376 (HIV+) |
| Sample type |
RNA |
| |
|
| Source name |
Frozen Tumor Biopsy_Sm Bowel
|
| Organism |
Homo sapiens |
| Characteristics |
specimen: frozen ARL tumor biopsy
tumor biopsy origin: Sm Bowel
gender: Male
pathology diagnosis: High Grade, UC
molecular diagnosis: DLBCL_NC
ebv status: negative
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using All Prep RNA/DNA kit (Qiagen, Valencia, CA) according to the manufacturers' protocols.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 11 micrograms of cRNA were hybridized for 16 hours at 45C on U133 plus 2.0 arrays from Affymetrix. Arrays were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
Scanning was performed by the Affymetrix 3000 Scanner.
|
| Description |
Gene expression data from frozen ARL tumor specimen
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
|
| |
|
| Submission date |
Jul 20, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Karen Deffenbacher |
| E-mail(s) |
kdeffenb@unmc.edu
|
| Phone |
402-559-7753
|
| Fax |
402-559-4990
|
| Organization name |
University of Nebraska Medical Center
|
| Department |
Pathology and Microbiology
|
| Lab |
Chan
|
| Street address |
987660 Nebraska Medical Center
|
| City |
Omaha |
| State/province |
NE |
| ZIP/Postal code |
68198-7660 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE17189 |
Molecular Classification of AIDS-Related Lymphomas |
| GSE17372 |
Molecular Classification of AIDS-Related Lymphomas [including third-party data] |
|
| Relations |
| Reanalyzed by |
GSE119087 |
