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Sample GSM3488746 Query DataSets for GSM3488746
Status Public on Jan 28, 2019
Title 2008_ARID1A-WT_NT_rep1
Sample type RNA
 
Source name 2008, NT, replicate1
Organism Homo sapiens
Characteristics cell line: 2008
cell type: ovarian carcinoma
genotype: ARID1A-WT
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

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
1 8782.726
2 4.062083
3 4.04818
4 430.2349
5 786.0694
6 71.94827
7 11760.67
8 1146.584
9 3.963392
10 10.23623
11 3.934982
12 880.9906
13 866.9189
14 436.2846
15 15861.8
16 3.865252
17 54.71319
18 4.159332
19 8.330787
20 505.556

Total number of rows: 62976

Table truncated, full table size 904 Kbytes.




Supplementary file Size Download File type/resource
GSM3488746_US85000263_252800421784_S01_GE1_107_Sep09_2_1.txt.gz 3.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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