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Sample GSM5348417 Query DataSets for GSM5348417
Status Public on May 20, 2024
Title F1F
Sample type RNA
 
Source name Liver tumor cell
Organism Homo sapiens
Characteristics cell line: PLC/PRF/5
treatment: Untreated
Treatment protocol None
Growth protocol Cell line PLC/PRF/5 and its derivatives were routinely maintained in Dulbecco’s modified Eagle’s medium (MACGENE Technology Ltd., Beijing, China) supplemented with 10% fetal bovine serum (Kangyuan Biology, China), and 100 units/mL penicillin plus 100 µg/mL streptomycin (Invitrogen).
Extracted molecule total RNA
Extraction protocol RNA was prepared using the TRIzol reagent following the manufacturer's recommendations. RNA was quantified using a NanoDrop-1000 spectrophotometer.
Label Cy3
Label protocol cDNA labeled with a fluorescent dye (Cy3-dCTP) was produced by Eberwine’s linear RNA amplification method and subsequent enzymatic reaction. This procedure has been previously described, and the procedure has been improved by using CapitalBio cRNA Amplification and Labeling Kit (CapitalBio) for producing higher yields of labeled cDNA.
 
Hybridization protocol DNA in hybridization solution was denatured at 95℃ for 3 min prior to loading onto a microarray. Arrays were hybridized was performed in a Agilent Hybridization Oven overnight at a rotation speed of 20 rpm at 42℃ and washed with two consecutive solutions (0.2% SDS, 2× SSC at 42℃ for 5 min, and 0.2× SSC for 5 min at room temperature).
Scan protocol Scanned on an Agilent G2565CA scanner.
Data processing Feature Extraction v10.7 (Agilent Technologies, CA) software was used to extract all features of the data obtained from the scanned images and GeneSpring software was used to analyze the raw data, which are normalized by percentile normalization.
 
Submission date May 30, 2021
Last update date May 20, 2024
Contact name Qiang Sun
E-mail(s) sunq@bmi.ac.cn
Phone 18201356998
Organization name Institute of Biotechnology
Department Laboratory of Cell Engineering
Lab Laboratory of Cell Engineering
Street address 20 Dongda Street
City Beijing
State/province Beijing
ZIP/Postal code 100071
Country China
 
Platform ID GPL570
Series (1)
GSE175819 Cell-in-Cell Structure Mediates In-Cell Killing Suppressed by CD44

Data table header descriptions
ID_REF
VALUE Log2 of 75 percentile normalized value.
Call

Data table
ID_REF VALUE Call
1007_s_at 134.8568 P
1053_at 172.8003 P
117_at 9.7801 A
121_at 68.1341 P
1255_g_at 2.2104 A
1294_at 11.3301 A
1316_at 65.3252 P
1320_at 7.8508 A
1405_i_at 2.5052 A
1431_at 3.9687 A
1438_at 10.1905 A
1487_at 72.8842 A
1494_f_at 15.8596 P
1552256_a_at 98.3991 P
1552257_a_at 280.9974 P
1552258_at 13.3439 A
1552261_at 9.3004 A
1552263_at 51.6301 P
1552264_a_at 38.5128 P
1552266_at 2.0273 A

Total number of rows: 54675

Table truncated, full table size 1102 Kbytes.




Supplementary file Size Download File type/resource
GSM5348417_170330-170500A_F1F_HG-U133_Plus_2_.CEL.gz 4.0 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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