Comment[GEAAccession]	E-GEAD-969
MAGE-TAB Version	1.1
Investigation Title	Differentially expressed genes in gastric carcinima cells by microRNA-375 (CBX92)
Experiment Description	MicroRNAs (miRNAs) are non-protein-coding small RNAs in the size range 19 to 25 nucleotides (nt) that are cleaved from 70 to100 nt hairpin pre-miRNA precursors. MiRNAs bind to complementary sequences in the 3'-untranslated regions of their target mRNAs and induce mRNA degradation or translational repression. Via these molecular mechanisms, miRNAs were found to be involved in various biological processes including cellular differentiation, proliferation and death. Furthermore, it has been reported that miRNAs were frequently dysregulated in human cancers and that they can act as potent oncogenes and tumor suppressor genes. Recently, we found that miR-375 was most downregulated in gastric carcinomas and its ectopic expression reduced cell viability. In this analysis, to identify genes whose expressions are regulated by miR-375, we performed gene-expression microarray analysis on NUGC3 and AZ521 cells transfected with precursor-miR-375 for 48 hrs. We found that expression of several apoptosis related genes were altered by miR-375, including YWHAZ, cIAP and bim.
Experimental Design	replicate design
Experimental Factor Name	sample_name
Experimental Factor Type	sample_name
Person Last Name	Moriyama	Tsukamoto
Person First Name	Masatsugu	Yoshiyuki
Person Affiliation	Molecular Pathology,Oita university	
Person Roles	submitter	
Public Release Date	2025-01-31
PubMed ID	20215506
Protocol Name	P-GEAD-4042	P-GEAD-4043	P-GEAD-4044	P-GEAD-4045	P-GEAD-4046	P-GEAD-4047	P-GEAD-4048	P-GEAD-4049
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	growth protocol	treatment protocol
Protocol Description	-80degree C	RNeasy Mini Kit (QIAGEN)	Quick Amp Labeling Kit (Agilent Technologies)	cRNA probes were hybridized to a microarray in Hybridization buffer (Agilent Technologies) at 60degree C for 17h.	Whole Human Genomic Oligo Microarray 44K, A microarray was scanned using Microarray scanner (Agilent Technologies) at a pixel resolution size of 5 microm.	Feature extraction V.9.5 (Agilent technologies), Probe set data were median normalized per chip. Then data were centered across the gene in 2 precursor-miRNA transfected cells, followed by filtering based on having a signal intensity of 100 or greater and containing within flagged values in 2 precursor-miRNA transfected cells., Signal intensities were log transformed. Extracted values less than 0.01 were transformed to 0.01.	Cells were maintained in RPMI supplemented with 10% fetal bovine serum., Cells were maintained in EMEM supplemented with 10% fetal bovine serum.	Cells were transfected with precursor microRNA at a final concentration of 10 nM using Lipofectamine RNAiMAx. 48 hours after transfection, cells were harvested and subjected to gene-expression microarray.
SDRF File	E-GEAD-969.sdrf.txt
Comment[Number of channel]	single-channel
Comment[Array Design REF]	A-GEAD-174
Comment[AEExperimentType]	transcription profiling by array
Comment[SecondaryAccession]	CBX92
Comment[BioProject]	PRJDB20069
Comment[CIBEX Accept Date]	2010-01-01
Comment[CIBEX Public Release Date]	2010-06-14
Comment[Last Update Date]	2025-01-31