|
| Status |
Public on Sep 28, 2018 |
| Title |
MDA-MB-231 Cells Untreated Control Triplicate2 |
| Sample type |
RNA |
| |
|
| Source name |
MDA-MB-231_No treatment
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231 ATCC® HTB-26™
cell type: mammary gland/breast; derived from metastatic site: pleural effusion
treatment: none (untreated control)
|
| Treatment protocol |
Cells were treated ± TNFɑ [40ng/mL] ± Apigenin [40uM] prepared in HBSS with a pH of 7.4 , both at sub-lethal concentrations. For whole transcriptome microarray studies, after a 24 hour treatment, cells were rapidly washed in HBSS 3x, spun and frozen at -80C.
|
| Growth protocol |
MDA-MB-231 cells were cultured in Dulbecco’s Modified Eagle’s Medium - high glucose with 4500 mg/L glucose, L-glutamine, sodium pyruvate, and sodium bicarbonate, supplemented with 10% FBS and 100 U/ml penicillin G sodium /100 μg/ml streptomycin sulfate. Cells were grown at 37°C with 95% air and 5% CO2 and sub-cultured every three to five days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
After treatment, cells were washed three times in HBSS, rapidly frozen and stored at -80 C. Total RNA was isolated/ purified using the TRIzol/chloroform method, quality was assessed and concentration was equalized to 82ng/ul in nuclease free water
|
| Label |
Biotin
|
| Label protocol |
cDNA was labeled using according to manufacturer's instructions as per the GeneChipTM WT PLUS Reagent Manual for Whole Transcript (WT) Expression Arrays. (Affymetrix, ThermoFisher Scientific).
|
| |
|
| Hybridization protocol |
Hybrization was conducted according to manufacturer's instructions as per the GeneChipTM WT PLUS Reagent Manual for Whole Transcript (WT) Expression Arrays. (Affymetrix, ThermoFisher Scientific), using GeneChip Human Gene 2.0 ST Array cartridges.
|
| Scan protocol |
Arrays were scanned with GeneAtlas Imaging station scanner (Affymetrix, ThermoFisher Scientific)
|
| Description |
Control2
|
| Data processing |
The data was processed using Affymetrix expression console and evaluated by Affymetrix transcription console software (Affymetrix, ThermoFisher Scientific)
affymetrix-algorithm-name = rma-gene-full
affymetrix-algorithm-version = 1.0
program-name = Expression Console
program-version = 1.4.1.46
|
| |
|
| Submission date |
Sep 27, 2018 |
| Last update date |
Sep 28, 2018 |
| Contact name |
Elizabeth A Mazzio |
| Organization name |
Florida Agricultural & Mechanical University
|
| Department |
College of Pharmacy & Pharmaceutical Science
|
| Lab |
Molecular Genetics Core Facility :241 Fred Humphries Science Research Building
|
| Street address |
1515 MLK Blvd
|
| City |
Tallahassee |
| State/province |
Florida |
| ZIP/Postal code |
32307 |
| Country |
USA |
| |
|
| Platform ID |
GPL17692 |
| Series (1) |
| GSE120550 |
Transcriptomic profiling of MDA-MB-231 cells treated with TNFɑ [40 ng/ml] ± Apigenin [40 μM]. |
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