Comment[ArrayExpressAccession]	E-GEOD-44111
MAGE-TAB Version	1.1						
Public Release Date	2013-07-01
Investigation Title	Transcriptome Profile of GM-NM-112-depleted OSCC cells						
Comment[Submitted Name]	Transcriptome Profile of GM-NM-112-depleted OSCC cells
Experiment Description	The elevation of guanine nucleotide binding protein alpha 12 (GM-NM-112) expression is highly associated with tumor invasiveness in several human cancers. We used an siRNA strategy to deplete GM-NM-112 in oral squamous cell carcinoma (OSCC) cells and analyze the transcriptome profile by the Affymetrix Human Exon 1.0 ST platform. Transcriptome analysis of total RNA samples from OSCC cells. We analyzed OSCC cell samples using the Affymetrix Human Exon 1.0 ST platform. Array data was processed by the Affymetrix Exon Array Computational Tool. No technical replicates were performed.						
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl					
Person Last Name	Jian	Juang	Jian	Nien			
Person First Name	Shiou-Ling	Jyh	Shiou	Shu			
Person Mid Initials		L	L	W			
Person Email	geo@ncbi.nlm.nih.gov						
Person Affiliation	National Health Research Institutes						
Person Address	Institute of Molecular and Genomic Medicine, National Health Research Institutes, 35 Keyan Road, Zhunan, Miaoli County, Taiwan						
Person Roles	submitter						
Protocol Name	P-GSE44111-1	P-GSE44111-5	P-GSE44111-6	P-GSE44111-2	P-GSE44111-3	P-GSE44111-4	P-GSE44111-7
Protocol Description	The data were analyzed using Affymetrix Expression ConsoleM-bM-^DM-" Software (version 1.2.0.20) default analysis settings and RMA (Robust Multi-Array) summarization and normalization options. Core exons were included in the analysis. Transcript assignments are based on genome build hg18. ID_REF =  VALUE = Log2 RMA expression value derived from Expression Console software	Single-stranded cDNA was generated from the amplified cRNA with the Applause WT Amp ST System (Nugen) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).	Samples were hybridized with GeneChip Human Gene 1.0 ST Arrays (Affymetrix).	Cells were transfected with 50nM control or GM-NM-112 siRNA using DharmaFECT transfection reagents (Dharmacon) for 48 hours.	HSC-3 and OC-3 cells were cultured in MEM and DMEM/KSFM supplemented with 10% fetal bovine serum and maintained in a 37M-0C incubator with 5% CO2/humidified air atmosphere.	Total RNA samples were extracted from cells using the RNeasy Mini Kit (Qiagen), according to the manufacturer's instructions.	Arrays were scanned at the NHRI Microarray Core Facility according to the manufacturer's instructions (Affymetrix).
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	growth protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	SIRNA	CELL LINE					
Experimental Factor Type	sirna	cell line					
Comment[SecondaryAccession]	GSE44111						
Comment[GEOReleaseDate]	2013-07-01						
Comment[ArrayExpressSubmissionDate]	2013-02-06						
Comment[GEOLastUpdateDate]	2013-07-01						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-44111.sdrf.txt