|
| Status |
Public on Mar 16, 2006 |
| Title |
JKim Hypoxia 2a |
| Sample type |
RNA |
| |
|
| Source name |
Human Burkitt’s lymphoma cell line, P493-6
|
| Organism |
Homo sapiens |
| Characteristics |
Human Burkitt’s lymphoma cell line, P493-6
|
| Biomaterial provider |
P493-6 cells were generated and provided by Dr. Dirk Eick GSF National Research Centre for Environment and Health, Institute of Clinical Molecular Biology and Tumor Genetics, Marchioninistraße 25, 81377 Munich, Germany
|
| Treatment protocol |
Hypoxic cells were maintained in a control atmosphere chamber at 0.1% O2 with 5% C02 and 95% N2 at 37C for 29 hours
|
| Growth protocol |
P493-6 cells were maintained in RPMI 1640 medium (GIBCO/BRL) with 10% fetal bovine serum (GIBCO/BRL) and 1% streptomycin and penicillin (Invitrogen) at 37C in a 5% CO2 incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from P493-6 cells using Trizol (Invitrogen) according to manufacturer’s instruction.
|
| Label |
Biotin
|
| Label protocol |
One round amplification protocol for total RNA following Affymetrix’ specifications using T7 promoter oligo dT primer for cDNA synthesis, and ENZO IVT kit (www.affymetrix.com, GeneChip Expression Analysis, Technical Manual, 2003).
|
| |
|
| Hybridization protocol |
16hrs at 45 C with rotation (60rpm) as described by Affymetrix in their GeneChip Expression Analysis Technical Manual, 2004.
|
| Scan protocol |
Using Affymetrix’ GeneChip Scanner 3000 and default parameters described by the manufacturer in their GeneChip Expression Analysis Technical Manual, 2004.
|
| Description |
JHMI Microarray Core
|
| Data processing |
Image analysis using GCOS 1.1.1, using MAS 5.0 algorithm and manufacturer’s specifications. Global scaling of images to a target intensity of 150.
|
| |
|
| Submission date |
Jan 23, 2006 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Chi V. Dang |
| E-mail(s) |
[email protected]
|
| Phone |
410-955-2773
|
| Fax |
410-955-0185
|
| Organization name |
Johns Hopkins University, School of Medicine
|
| Department |
Medicine
|
| Street address |
720 Rutland Ave, Ross 1032
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21210 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE4086 |
Hypoxia responsive genes in human Burkitt’s lymphoma cell line, P493-6. |
|
| Relations |
| Reanalyzed by |
GSE64985 |
| Reanalyzed by |
GSE119087 |
