Comment[ArrayExpressAccession] E-GEOD-34925 Public Release Date 2012-01-07 Investigation Title Expression data from knockdown of G9a in MDA-MB231 cells Comment[Submitted Name] Expression data from knockdown of G9a in MDA-MB231 cells Experiment Description G9a is an H3K9m2 methyltransferase, which is critical in controlling gene suppression and DNA methylation. We used microarray analysis to identify the target genes that are regulated by G9a in MDA-MB231 cells, in which E-cadherin is silenced. G9a expression was stably knocked-down in MDA-MB231 cells. RNA from this clone and parental (control) cells were purified for microarray analysis. Date of Experiment Term Source Name EFO Term Source Version Term Source File http://www.ebi.ac.uk/efo/efo.owl Person Last Name Zhou Chenfang Zhou Person First Name Binhua Dong Binhua Person Mid Initials P P Person Email peter.zhou@uky.edu Person Affiliation University of Kentucky School of Medicine Person Phone 859-323-4474 Person Fax 859-257-6030 Person Address Markey Cancer Center/Biochemistry, University of Kentucky School of Medicine, 741 South Limestone, Lexington, KY, USA Person Roles submitter Person Roles Term Source REF Person Roles Term Accession Number Normalization Type Normalization Term Accession Number Normalization Term Source REF Replicate Type Replicate Term Accession Number Replicate Term Source REF Experimental Design Experimental Design Term Accession Number Experimental Design Term Source REF Quality Control Type Quality Control Term Accession Number Quality Control Term Source REF Protocol Name P-GSE34925-1 P-GSE34925-6 P-GSE34925-5 P-GSE34925-3 P-GSE34925-2 P-GSE34925-4 P-GSE34925-7 Protocol Description ID_REF =
VALUE = RMA-calculated signal intensity Scanning was performed at the core technician at the microarray core facility at the University of Kentucky School of Medicine. Hybridization was performed at the core technician at the microarray core facility at the University of Kentucky School of Medicine. Total RNA was extracted from cells using the Qiagen RNA purification kit following the manufacturer's protocol. Cells were grown in DMEM/F12 plus 10%FBS in 5%CO2 at 37C. Cells were trypsinized and harvested when in log-growth phase. Labeling was performed at the core technician at the microarray core facility at the University of Kentucky School of Medicine. Data processing was performed at the core technician at the microarray core facility at the University of Kentucky School of Medicine. Protocol Software Protocol Hardware Protocol Contact Protocol Type bioassay_data_transformation image_acquisition hybridization nucleic_acid_extraction grow labeling feature_extraction Protocol Term Source REF Protocol Term Accession Number Experimental Factor Name genotype Experimental Factor Type genotype Experimental Factor Term Source REF Experimental Factor Term Accession Number Publication Title G9a interacts with Snail and is critical for Snail-mediated E-cadherin repression in human breast cancer Loss of FBP1 by Snail-mediated repression provides metabolic advantages in basal-like breast cancer Publication Author List Dong C, Wu Y, Yao J, Wang Y, Yu Y, Rychahou PG, Evers BM, Zhou BP Dong C, Yuan T, Wu Y, Wang Y, Fan TW, Miriyala S, Lin Y, Yao J, Shi J, Kang T, Lorkiewicz P, St Clair D, Hung MC, Evers BM, Zhou BP PubMed ID 22406531 23453623 Publication DOI 10.1172/JCI57349 10.1016/j.ccr.2013.01.022 Publication Status Publication Status Term Source REF Publication Status Term Accession Number Comment[SecondaryAccession] GSE34925 Comment[GEOLastUpdateDate] 2012-01-13 Comment[AEExperimentType] transcription profiling by array Comment[GEOReleaseDate] 2012-01-07 Comment[ArrayExpressSubmissionDate] 2012-01-06 SDRF File E-GEOD-34925.sdrf.txt