|
| Status |
Public on Jan 01, 2017 |
| Title |
Colo320DM control #3 with 5-aza-dC |
| Sample type |
RNA |
| |
|
| Source name |
Colo320DM control
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Colo320DM
cell type: colorectal cancer (CRC) cells
transfected with: pcDNA6.2-GW/EmGFP-miR-neg control plasmid
treated with: 1 μM 5-aza-2’-deoxycytidine (5-aza-dC) for 72 h
|
| Treatment protocol |
Cells were transfected with each TET1 knockdown vector or a pcDNA6.2-GW/EmGFP-miR-neg control plasmid (Thermo Fisher Scientific), after which they were selected with 1.0 mg/ml G418. Established clones were treated with our without with 1 μM 5-aza-2’-deoxycytidine (5-aza-dC, Sigma-Aldrich) for 72 h, replacing the drug and medium every 24 h.
|
| Growth protocol |
Colo320DM cells were cultured in DMEM supplemented with 10% heat-inactivated fetal bovine serum. The cultures were incubated at 37 ºC in a humidified incubator with 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using a TRIZOL reagent (Invitrogen).
|
| Label |
Cy3
|
| Label protocol |
Total RNA (100 ng) was labeled using a Low Input Quick Amp Labeling Kit One-Color (Agilent Technologies) according to manufacturer's instruction.
|
| |
|
| Hybridization protocol |
Hybridization was performed using a Gene Expression Hybridization kit (Agilent Technologies) according to manufacturer's instruction.
|
| Scan protocol |
Array was scanned with an Agilent G2565BA Microarray Scanner.
|
| Description |
Colo320DM negative control clone 3 treated with 5-aza-dC
Colo320_CONT3_aza
|
| Data processing |
Agilent Feature Extraction Software (v 10.7) was used following default protocol with background subtraction.
|
| |
|
| Submission date |
Jul 14, 2016 |
| Last update date |
Apr 23, 2018 |
| Contact name |
Hiromu Suzuki |
| E-mail(s) |
hsuzuki@sapmed.ac.jp
|
| Phone |
+81-11-611-2111
|
| Organization name |
Sapporo Medical University
|
| Department |
Department of Molecular Biology
|
| Street address |
S1, W17, Chuo-ku
|
| City |
Sapporo |
| State/province |
Hokkaido |
| ZIP/Postal code |
060-8556 |
| Country |
Japan |
| |
|
| Platform ID |
GPL16699 |
| Series (2) |
| GSE84396 |
Analysis of gene expression in TET1 depleted colorectal cancer Colo320DM cells |
| GSE84400 |
Analysis of DNA methylation and gene expression in TET1 depleted colorectal cancer cells |
|
| Relations |
| Reanalyzed by |
GSE113533 |
