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Sample GSM2667439 Query DataSets for GSM2667439
Status Public on Feb 14, 2018
Title GA-treated H1299, bio rep-2
Sample type RNA
 
Source name Lung cell line H1299, GA treated, 120 h
Organism Homo sapiens
Characteristics tissue: lung
cell line: H1299
tumor type: non-small cell lung carcinoma
treatment: GA treated, 120 h
Treatment protocol Cells were treated with either 10 mM of GA or 5azaC for 120 h. Untreated cells of the same passage were used as controls.
Growth protocol Cells were maintained in RPMI1640 medium supplemented with 10% FBS, penicillin (100 U/mL) and streptomycin (100 μg/mL). Cells were maintained at 37°C in a humidified 5% CO2 incubator
Extracted molecule total RNA
Extraction protocol Total RNA were extracted from cultured cells using RNeasy Mini-kit (Qiagen, MD, USA) followed the manufacturer’s protocol as described previously.
Label biotin
Label protocol Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
 
Hybridization protocol Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 99° for 5 minutes, then 42° for 5 minutes centrifuge at max speed for 1 minute (N.B. this deviates from Affy SOP). • Transfer 200μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 16 hours at 45° at 60rpm• Fluidics washing is FS450_0001
Scan protocol Affymetrix Gene ChIP Scanner 3000 7G
Description H1299 cell line treated with GA for 120 h
Data processing Data were processed using Affymetrix Expression Console Software (version 1.4) which normalizes array signals using Signal Space Transformation (SST) and robust multiarray averaging (RMA) algorithm.
probe group file: Clariom_S_Human.r1.pgf
meta-probeset file: Clariom_S_Human.r1.mps
 
Submission date Jun 13, 2017
Last update date Feb 14, 2018
Contact name Chia Huei Lee
E-mail(s) chlee124@nhri.edu.tw
Organization name Taiwan National Health Research Institute
Department National Institute of Cancer Research
Street address 35, Keyan Rd.
City Zhunan Miaoli County
ZIP/Postal code 114
Country Taiwan
 
Platform ID GPL23159
Series (1)
GSE99993 Expression data from 5azaC- or gallic acid-treated human lung cancer H1299 cell line

Data table header descriptions
ID_REF
VALUE Normalized expression in SST-RMA signal intensity (log2 based values) from Affymetrix Expression Console Software (version 1.4)

Data table
ID_REF VALUE
TC0100006437.hg.1 2.961104
TC0100006476.hg.1 4.787589
TC0100006479.hg.1 5.532
TC0100006480.hg.1 4.135644
TC0100006483.hg.1 5.049529
TC0100006486.hg.1 4.878209
TC0100006490.hg.1 3.807045
TC0100006492.hg.1 3.87438
TC0100006494.hg.1 6.83387
TC0100006497.hg.1 3.91777
TC0100006499.hg.1 6.120075
TC0100006501.hg.1 6.910648
TC0100006502.hg.1 3.064409
TC0100006514.hg.1 2.299762
TC0100006516.hg.1 6.245173
TC0100006517.hg.1 3.635659
TC0100006524.hg.1 4.140648
TC0100006540.hg.1 3.532725
TC0100006548.hg.1 2.532374
TC0100006550.hg.1 9.290012

Total number of rows: 24351

Table truncated, full table size 659 Kbytes.




Supplementary file Size Download File type/resource
GSM2667439_H1299_GA_2.CEL.gz 1016.5 Kb (ftp)(http) CEL
Processed data included within Sample table

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