Comment[GEAAccession]	E-GEAD-369
MAGE-TAB Version	1.1
Investigation Title	MiRNA microarray in vitro
Experiment Description	LncRNA interacts with other molecules such as protein, DNA and RNA in cytoplasm and nucleus. TUG1 was identified as a cytoplasm enriched lncRNA. Cytoplasmic lncRNA inhibits function of miRNA by direct binding. To identify potential target miRNAs of TUG1, we examined miRNA expression changes upon TUG1 inhibition using a miRNA-based expression microarray approach.
Experimental Design	growth condition design
Experimental Factor Name	treatment
Experimental Factor Type	treatment
Person Last Name	tasaki
Person First Name	yoshihiko
Person Affiliation	Cancer Biology, Nagoya University Graduate School of Medicine
Person Roles	submitter
Public Release Date	2021-01-15
Protocol Name	P-GEAD-501	P-GEAD-502	P-GEAD-503	P-GEAD-504	P-GEAD-505	P-GEAD-506
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid labeling protocol	nucleic acid hybridization to array protocol	array scanning and feature extraction protocol	normalization data transformation protocol
Protocol Description	BxPC3 was transfected with 50nM anti-sense targeting TUG1 or negative control using Lipofectamine 3000. After transfection, we collected these samples.	Total RNA was isolated from BxPC-3 with TRIzol reagent (Life Technologies).	100 ng of total RNA was labelled with pCp-Cy3 (Agilent Technologies) and 15 units of T4 RNA ligase (GE Healthcare) at 16 ????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????C for 2 h.	Labelled samples were purified with MicroBio Spin six columns (Bio-Rad) and hybridized to microarrays at 55 ????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????C with rotation at 20 rpm for 20 h.	The arrays were scanned using an Agilent Microarray Scanner (Agilent Technologies). The scanned images were analyzed using the Feature Extraction software, version 10.7.3.1 (Agilent Technologies) with background correction.	Data analysis was performed with GeneSpring GX, version 12.6.0 (Silicon Genetics). Expression data were centered on a median with the use of the GeneSpring normalization option with no substantial difference in results.
SDRF File	E-GEAD-369.sdrf.txt
Comment[Number of channel]	single-channel
Comment[Array Design REF]	A-GEAD-12
Comment[AEExperimentType]	microRNA profiling by array
Comment[BioProject]	PRJDB9877
Comment[Last Update Date]	2021-01-15