|
| Status |
Public on Dec 29, 2009 |
| Title |
SKBR3 LacZi D3 8h |
| Sample type |
RNA |
| |
|
| Source name |
SKBR3 control treated with vitamin D3 for 8h
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Breast carcinoma
cell line: SKBR3
genome/variation: p53R175H
sirna: LacZi
treatment group: 1a25-vitamin D3 8 hrs
|
| Treatment protocol |
SKBR3 cells were transfected with siRNA oligonucleotides ("Invitrogen") specific for p53 (p53i) or LacZ (LacZi) as negative control, using darmafect protocol. After 24h, 1alpha25(OH)2D3 (D3, 100nM) was added for for the time points indicated. Cells were harvested and RNA was extracted.
|
| Growth protocol |
SKBR3 breast cancer cells were maintained in RPMI-1640 medium supplemented with 10% charcoal stripped fetal calf serum (FCS) and antibiotics.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol 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 from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Hu133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
VR129Hu133plus.CEL
|
| 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 |
Dec 28, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Perry Stambolsky |
| E-mail(s) |
perrystam@hotmail.com
|
| Phone |
972-8-9342805
|
| Fax |
972-8-9465265
|
| Organization name |
Weizmann institute of science
|
| Department |
MCB
|
| Street address |
Herzel 200
|
| City |
Rehovot |
| ZIP/Postal code |
76100 |
| Country |
Israel |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE19670 |
Expression array analysis of the effects of vitamin D3 and mutp53 |
|
| Relations |
| Reanalyzed by |
GSE119087 |
