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Sample GSM2233026 Query DataSets for GSM2233026
Status Public on Jan 01, 2017
Title Colo320DM control #1 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 1 treated with 5-aza-dC
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
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
Reanalyzed by GSE113533

Data table header descriptions
VALUE processed

Data table
1 6.53E+04
2 5.35E+00
3 5.36E+00
4 3.27E+03
5 5.37E+00
6 5.37E+00
7 5.37E+00
8 5.37E+00
9 1.36E+05
10 3.35E+03
11 2.17E+03
12 1.56E+03
13 1.39E+02
14 5.34E+00
15 9.79E+00
16 1.01E+01
17 1.69E+02
18 2.40E+02
19 1.01E+03
20 4.16E+03

Total number of rows: 62976

Table truncated, full table size 911 Kbytes.

Supplementary file Size Download File type/resource
GSM2233026_Colo320_CONT1_aza.txt.gz 12.4 Mb (ftp)(http) TXT
Processed data included within Sample table

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