|
| Status |
Public on Nov 18, 2020 |
| Title |
MCF-7, biological rep1 [lncRNA and mRNA] |
| Sample type |
RNA |
| |
|
| Source name |
MCF-7 cell
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF-7
tamoxifen resistance: No
fulvestrant resistance: No
|
| Treatment protocol |
MCF-7, LCC2 or LCC9 cells were resuspended with phenol red free IMEM supplemented with 5% charcoal-stripped FBS and 1% penicillin/streptomycin and seeded in T75 flasks. Culture medium was changed once on day 2. Cells were washed with normal saline twice and harvested on day 4.
|
| Growth protocol |
MCF-7, LCC2 and LCC9 cells were grown in phenol red free IMEM supplemented with 5% charcoal-stripped FBS and 1% penicillin/streptomycin in a cell culture incubator at 37 ℃ and 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was prepared using the TRIzol reagent following the manufacturer's recommendations. RNA was quantified using a NanoDrop-1000 spectrophotometer.
|
| Label |
Cy3
|
| Label protocol |
cDNA labeled with a fluorescent dye (Cy3-dCTP) was produced by Eberwine’s linear RNA amplification method and subsequent enzymatic reaction. This procedure has been previously described, and the procedure has been improved by using CapitalBio cRNA Amplification and Labeling Kit (CapitalBio) for producing higher yields of labeled cDNA.
|
| |
|
| Hybridization protocol |
DNA in hybridization solution was denatured at 95℃ for 3 min prior to loading onto a microarray. Arrays were hybridized was preformed in a Agilent Hybridization Oven overnight at a rotation speed of 20 rpm at 42℃ and washed with two consecutive solutions (0.2% SDS, 2× SSC at 42℃ for 5 min, and 0.2× SSC for 5 min at room temperature).
|
| Scan protocol |
Scanned on an Agilent G2565CA scanner.
|
| Description |
S-1
LncRNA and mRNA expression data from MCF-7 cells.
|
| Data processing |
Feature Extraction v10.7 (Agilent Technologies, CA) software was used to extract all features of the data obtained from the scanned images and GeneSpring software was used to analyze the raw data, which are normalized by quantile normalization.
|
| |
|
| Submission date |
Oct 23, 2020 |
| Last update date |
Nov 18, 2020 |
| Contact name |
Min Jiang |
| E-mail(s) |
jiangmin1023@suda.edu.cn
|
| Organization name |
The First Affiliated Hospital of Soochow University
|
| Street address |
No. 188, Shi Zi Road
|
| City |
Suzhou |
| State/province |
Jiangsu |
| ZIP/Postal code |
215006 |
| Country |
China |
| |
|
| Platform ID |
GPL20115 |
| Series (2) |
| GSE159968 |
lncRNA and mRNA expression data from MCF-7, LCC2 and LCC9 cells |
| GSE159981 |
lncRNA, mRNA, miRNA and circRNA expression data from MCF-7, LCC2 and LCC9 cells |
|
