Comment[ArrayExpressAccession]	E-GEOD-83818
MAGE-TAB Version	1.1						
Public Release Date	2016-06-29
Investigation Title	Expression data from KDM3A knockdown MDA-MB-231 cells						
Comment[Submitted Name]	Expression data from KDM3A knockdown MDA-MB-231 cells
Experiment Description	Breast cancer invasive growth, metastasis and therapeutic resistance affects the clinical ourcome. We explored the epigenetic mechanisms that control these process in breast cancer cell line, MDA-MB-231 by knocking down a lysine specific demethylase KDM3A We used microarrays to detail the global programme of gene expression underlying cellularisation and identified distinct classes of up-regulated genes during this process. Human breast cancer cell line MDA-MB-231 was infected with scramble or KDM3A shRNA. After selection, the cells were used for microarray analysis.						
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	Wang	Ramadoss	Guo	Wang			
Person First Name	Cun-Yu	Sivakumar	Gao	Cun-Yu			
Person Email	cunywang@ucla.edu						
Person Affiliation	UCLA School of Dentistry						
Person Phone	3108254607						
Person Address	Division of Oral Biology and Medicine, UCLA School of Dentistry, 10833 Le Conte Avenue, Los Angeles, California(CA), USA						
Person Roles	submitter						
Protocol Name	P-GSE83818-1	P-GSE83818-5	P-GSE83818-6	P-GSE83818-2	P-GSE83818-3	P-GSE83818-4	P-GSE83818-7
Protocol Description	The data were analyzed with Microarray Suite version 5.0 (MAS 5.0). ID_REF =  VALUE = MAS5.0 signal intensity ABS_CALL = 	Biotin labelled cRNA were prepared by standard Affymetrix protocol from 5 ug total RNA	Following fragmentation, cRNA were hybridized with an Affymetrix Human Genome Plus 2.0 Array.	The cells were transfected with scramble or KDM3A shRNA. After puromycin (1 mcg/ml) selection, cells were used.	Hunam breast cancer cell line, MDA-MB-231 was cultured by standard protocl using DMEM with 10% FBS and antibiotics	RNA was extracted using RNeasy kit (quagen) following manufacturers protocol	The arrays were scanned with a GeneArray scanner (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	organism part	infection					
Experimental Factor Type	organism part	infection					
Comment[SecondaryAccession]	GSE83818						
Comment[GEOReleaseDate]	2016-06-29						
Comment[ArrayExpressSubmissionDate]	2016-06-28						
Comment[GEOLastUpdateDate]	2016-07-01						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-83818.sdrf.txt