|
| Status |
Public on Nov 30, 2015 |
| Title |
CD24 siRNA-treated HCC1937 cells |
| Sample type |
RNA |
| |
|
| Source name |
HCC1937 cells, CD24 siRNA
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCC1937
cell type: breast cancer cell line
sirna: CD24
|
| Treatment protocol |
Following overnight attachment to a 6-well plate, 3.0 x 10^5 cells per well were transfected for 48 hours using Lipofectamine® RNAiMAX Reagent (Invitrogen by Life Technologies) according to the manufacturer's protocol. Sixteen hours after the medium change, siRNA-transfected cells were used for further experiments.
|
| Growth protocol |
The culture condition for CD24-siRNA-treated HCC1937 cells was as following: RPMI1640 medium supplemented with 10% FCS, L-Gln and penicillin-streptomycin, 5% CO2/air.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated and purified from CD24-treated HCC1937 cells using High Pure RNA Isolation Kit (Roche, #11 828 665 001).
|
| Label |
Cy3
|
| Label protocol |
cRNA was amplified and labelled using a Low Input Quick Amp Labelling Kit (Agilent Technologies).
|
| |
|
| Hybridization protocol |
cRNA was hybridized to a 60K 60-mer oligomicroarray (Agilent-039494 SurePrint G3 Human Gene Expression Microarray 8x60K v2; Agilent Technologies) according to the manufacturer's instructions.
|
| Scan protocol |
The hybridized microarray slides were scanned using an Agilent scanner. The relative hybridization intensities and background hybridization values were calculated using Feature Extraction Software version 9.5.1.1 (Agilent Technologies).
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 9.5.1.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. The raw signal intensities and flags for each probe were calculated from the hybridization intensities and spot information according to the procedures recommended by Agilent Technologies using the Flag criteria in the GeneSpring Software. In addition, the raw signal intensities of two samples were log2-transformed and normalized by the quantile algorithm with the Bioconductor.
|
| |
|
| Submission date |
Oct 13, 2015 |
| Last update date |
Apr 23, 2018 |
| Contact name |
Hideya Onishi |
| E-mail(s) |
[email protected]
|
| Organization name |
Graduate School of Medical Sciences, Kyushu University
|
| Department |
Department of Cancer Therapy and Research
|
| Street address |
3-1-1 Maidashi, Higashi-ku
|
| City |
Fukuoka |
| ZIP/Postal code |
812-8582 |
| Country |
Japan |
| |
|
| Platform ID |
GPL17077 |
| Series (2) |
| GSE73960 |
CD24 suppresses malignant phenotype by downregulation of SHH transcription through STAT1 inhibition in breast cancer cells [HCC1937] |
| GSE73961 |
CD24 suppresses malignant phenotype by downregulation of SHH transcription through STAT1 inhibition in breast cancer cells |
|
| Relations |
| Reanalyzed by |
GSE113533 |
