|
| Status |
Public on Dec 10, 2010 |
| Title |
FADU-HIF1a(dODD) |
| Sample type |
RNA |
| |
|
| Source name |
human hypopharyngeal squamous cell carcinoma cell line FADU transfected with pHA-HIF1a(dODD)
|
| Organism |
Homo sapiens |
| Characteristics |
cell line source ethnicity: Caucasian
cell line source gender: Male
cell line source age: 56
cell line source tissue: primary human hypopharyngeal squamous cell carcinoma
transfection: pHA-HIF1a(dODD)
cell line: FADU
|
| Growth protocol |
cultivated in RPMI + 10% fetal bovine serum
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were lysed by adding 2 ml of trizol reagent (Invitrogen) and homogenized by passing through a syringe with a needle (26G). RNA was picked up in the aqueous phase following phase separation by chloroform. The RNA was then precipitate with isopropanol, washed with ethanol (75%), dissolved in DEPC-treated RNAse/DNAse free water and quantified by spectrophotometry.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol (see complete protocol descriptions: http://www.affymetrix.com/support/technical/manual/expression_manual.affx)
|
| |
|
| Hybridization protocol |
Hybridization was performed according to the standard Affymetrix protocol (see complete protocol descriptions: http://www.affymetrix.com/support/technical/manual/expression_manual.affx)
|
| Scan protocol |
Arrays were scanned with the Affymetrix GeneChip® Scanner 3000 7G and the data was extracted using Microarray Analysis Suite 5.0 (Affymetrix).
|
| Description |
Human hypopharyngeal cancer cell line FADU transfected with pHA-HIF1a(dODD) vector which expresses a HIF-1a mutant with an oxygen degradation domain (∆ODD) deletion that functions in a normoxic environment were grown to near confluence and collected total RNA for array analysis.
|
| Data processing |
We used the Affymetrix GeneChip Suite 5.0 software (MAS 5.0) to calculate raw expression values for each probe sets on the U133 2.0 oligonucleotide arrays.
|
| |
|
| Submission date |
Dec 10, 2009 |
| Last update date |
Dec 10, 2010 |
| Contact name |
Muh-Hwa Yang |
| E-mail(s) |
mhyang2@vghtpe.gov.tw
|
| Phone |
+886-228235870
|
| Fax |
+886-228235870
|
| Organization name |
National Yang-Ming University
|
| Department |
Institute of Clinical Medicine
|
| Lab |
Dr. M.H. Yang's Lab
|
| Street address |
No.155, Sec.2, Li-Nong Street
|
| City |
Taipei |
| ZIP/Postal code |
112 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE19406 |
Transcriptome drift of FADU after expression of HIF-1a, Twist1 or Bmi1 |
|
