|
| Status |
Public on Jan 28, 2019 |
| Title |
HCT116_ARID1A-KO_NT_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
HCT116ARID1AKO, NT, replicate2
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCT116
cell type: colorectal carcinoma
genotype: ARID1AKO
|
| Growth protocol |
The cell cultures were incubated for 24 hours at 37 ºC in a humidified incubator with 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the Qiagen RNeasy kit.
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cRNA was prepared from 0.4 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
|
| |
|
| Hybridization protocol |
cDNA was hybridized to Agilent microarrays (SurePrint G3 Human Gene Expression 8 x 60K Ver.1.0, G4851: 42405 probes) using a Gene Expression Hybridization Kit (Agilent Technologies) for 16 h at 65°C in duplicate.
|
| Scan protocol |
After the arrays were washed using the Gene Expression Wash Pack (Agilent Technologies), the data were extracted using an Agilent scanner.
|
| Description |
Gene expression in growing cells
|
| Data processing |
The arrays were first analyzed using the Feature Extraction software (Agilent Technologies).
|
| |
|
| Submission date |
Nov 26, 2018 |
| Last update date |
Jan 28, 2019 |
| Contact name |
Takashi Kohno |
| E-mail(s) |
tkkohno@ncc.go.jp
|
| Phone |
+81-3-3547-2511 (4650)
|
| Organization name |
National Cancer Center Research Institute
|
| Lab |
Division of Genome Biology
|
| Street address |
1-1, Tsukiji 5-chome
|
| City |
Chuo-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
104-0045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL13607 |
| Series (1) |
| GSE122926 |
Genome-wide gene expression analysis in ARID1A-proficient and ARID1A-deficient cancer cells |
|
