|
| Status |
Public on Apr 01, 2015 |
| Title |
MCF7-EGCG-2 |
| Sample type |
RNA |
| |
|
| Source name |
breast cancer cell line (MCF7)
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF7
tissue: mammary gland/breast
cell type: epithelial
treated with: EGCG for 24hrs
|
| Treatment protocol |
Cells were incubated in phenol red free medium for 4hr (to ensure complete removal of phenol red) and treatment was started, after a DPBS wash, by adding fresh phenol red free medium along with appropriate drug or vehicle.
|
| Growth protocol |
MCF7 cells were maintained in phenol red containing DMEM-F12 supplemented with 10%FBS. For experiments cells were seeded in 6 well plates at a density of 2*10^5 cells/well in phenol red containing medium. After 48hr spent medium was removed, cells were washed with DPBS and phenol red free DMEM-F12, supplemented with 10% charcoal stripped dextran treated FCS, was added.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
After the After 24hr of treatment the spent medium was removed and cells were lysed in RLT lysis buffer and total RNA was isolated by Qiagen’s RNeasy minikit.
|
| Label |
Cy3
|
| Label protocol |
T7 promoter based-linear amplification to generate labeled complementary RNA (One-Color Microarray-Based Gene Expression Analysis). Kit: Agilent’s Low input RNA linear amplification Kit one color
|
| |
|
| Hybridization protocol |
Agilent’s In situ Hybridization kit
|
| Scan protocol |
Agilent's Scanner with SureScan technology. 5 micron resolution
|
| Description |
X2
|
| Data processing |
Data processing was done in R software environment using LIMMA package. Raw median signal intensities were background subtracted by normexp method and between arrays normalization was done by quantile method. Probe ID replicates were averaged. Lmfit and eBayes (Empirical Bayes) methods were used to identify differentially regulated genes.
|
| |
|
| Submission date |
Mar 26, 2014 |
| Last update date |
Apr 01, 2015 |
| Contact name |
Anil Mukund Limaye |
| E-mail(s) |
[email protected]
|
| Phone |
+91-0361-2582218
|
| Organization name |
Indian Institute of Technology Guwahati
|
| Department |
Department of Biosciences and Bioengineering
|
| Street address |
IIT Guwahati
|
| City |
Guwahati |
| State/province |
Assam |
| ZIP/Postal code |
781039 |
| Country |
India |
| |
|
| Platform ID |
GPL13252 |
| Series (1) |
| GSE56245 |
Effect of Epigallocatechin gallate (EGCG), a green tea ployphenol, on estrogen regulated genes in breast cancer cell line MCF7. |
|
