NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM3573454 Query DataSets for GSM3573454
Status Public on Jan 22, 2019
Title Hep3B_control (2nd)
Sample type RNA
 
Source name Hep3B, negative control miRNA mimic, 72 hours
Organism Homo sapiens
Characteristics cell line: Hep3B
cell type: hepatocellular carcinoma
transfection: negative control miRNA
Treatment protocol For characterization of miR-493-5p targets, total RNAs were collected from Hep3B and HepG2 cells 72 hours after cell transfection using miR-493-5p and negative control miRNA mimics (100 nM).
Growth protocol Human Hep3B and HepG2 cells were purchased from the American Type Culture Collection and maintained in DMEM (Gibco) supplemented with penicillin (50 IU/mL; Gibco), streptomycin (50 µg/mL; Gibco), and 10 % fetal bovine serum (FBS; Thermo Scientific).
Extracted molecule total RNA
Extraction protocol mRNA and miRNA were purified using a miRNeasy Mini Kit (Qiagen) according to the manufacturer’s protocol. Total RNA was quantified using a NanoDrop 1000 spectrophotometer (Thermo Scientific), and the integrity of the RNA was evaluated with an Agilent 2100 Bioanalyzer (Agilent Technologies).
Label Cy3
Label protocol Agilent one-color Low RNA Input Linear Amplification Kit labeling protocol. Cyanine-3 (Cy3)
 
Hybridization protocol Agilent one-color gene expression hyb/wash protocol.
Scan protocol Microarray slides were scanned in an Agilent Technologies G2505C Microarray Scanner at 3 micron resolution.
Description Gene expression after miR-493-5p overexpression versus control
Data processing The raw data were processed using Agilent’s Feature Extraction Software version 10.7.3.1 to analyze the array and calculate the intensities of the measured spots.
 
Submission date Jan 21, 2019
Last update date Jan 22, 2019
Contact name Luc Gailhouste
E-mail(s) luc.gailhouste@riken.jp
Organization name RIKEN
Department Cluster for Pioneering Research
Lab Liver Cancer Prevention Research Unit
Street address 408 Main Research Building, 2-1 Hirosawa
City Wako
State/province Saitama
ZIP/Postal code 351-0198
Country Japan
 
Platform ID GPL17077
Series (1)
GSE125407 Characterization of microRNA-493-5p targets in liver cell lines (2nd set of data)

Data table header descriptions
ID_REF
VALUE Normalized signal intensity.

Data table
ID_REF VALUE
A_23_P117082 -0.50361633
A_33_P3246448 5.5946646
A_33_P3318220 1.9230375
A_33_P3236322 0.033708572
A_33_P3319925 -0.6642604
A_21_P0000509 -0.5377312
A_21_P0000744 0.049139023
A_24_P215804 -1.3396559
A_23_P110167 -0.82891226
A_33_P3211513 0.18800497
A_23_P103349 1.0079818
A_32_P61480 -0.08660793
A_33_P3788124 -0.085823536
A_33_P3414202 0.29731798
A_33_P3316686 0.29579306
A_33_P3300975 3.1902795
A_33_P3263061 0.1652317
A_33_P3261373 0.61793756
A_24_P278460 -0.12842226
A_21_P0013109 -0.22625113

Total number of rows: 50737

Table truncated, full table size 1230 Kbytes.




Supplementary file Size Download File type/resource
GSM3573454_1-3B_Ctrl.txt.gz 12.2 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap