Comment[GEAAccession]	E-GEAD-298
MAGE-TAB Version	1.1
Investigation Title	Comparison of gene expression profiles between IGFBP-2-knockdown and control glioblastoma cell line YKG-1
Experiment Description	To examine the role of IGFBP-2 in gliuoblastoma (GBM) cell function, we used short hairpin RNA (shRNA) directed against IGFBP-2 mRNA. We constructed retroviral vectors which showed stable and significant silencing effects on IGFBP-2 genes of two different human GBM cell lines, U251 and YKG-1. Expression profiles of IGFBP-2-knockdown YKG-1 with those from control cells are shown.
Experimental Design	genetic modification design
Experimental Factor Name	genetic modification
Experimental Factor Type	genetic modification
Person Last Name	Kataoka	Tezuka	Shimomura	Fukushima
Person First Name	Hiroaki	Tomoaki	Takeshi	Tsuyoshi
Person Affiliation	Section of Oncopathology and Regenerative Biology,Department of Pathology,Faculty of Medicine,University of Miyazaki			
Person Roles	submitter	submitter	submitter	submitter
Public Release Date	2019-02-01
PubMed ID	17475624
Protocol Name	P-GEAD-107	P-GEAD-108	P-GEAD-109	P-GEAD-110	P-GEAD-111	P-GEAD-112
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	Cultured in Dulbecco's modified Eagle's medium (DMEM) containing 10% fetal bovine serum (FBS) at 37 degree_C in a humidified atmosphere containing 5% CO2.	Total RNAs were extracted with TrizolTM reagent (Gibco BRL, Gaithersburg, MD), followed by DNase I (Roche Applied Science, Indianapolis, IN) treatment and phenol-chloroform-isoamylalcohol extraction. The total RNA was reverse-transcribed with the T7-oligo(dT)24 primer followed by 2nd strand cDNA synthesis using a Super Script Choice System Kit (Invitrogen). The converted cDNA was repurified by phenol-chloroform-isoamyl alcohol and quality checked by electrophoresis.	One-cycle target labeling kit (Affymetrix)	Affymetrix standard procedure	By using GeneChip Scanner 3000 (Affymetrix)	By using GCOS software (Affymetrix).  Scaling all probe sets for 100 (GCOS packaging)
SDRF File	E-GEAD-298.sdrf.txt
Comment[Number of channel]	single-channel
Comment[CIBEX Submitter]	Hiroaki Kataoka, Tomoaki Tezuka, Takeshi Shimomura, Tsuyoshi Fukushima
Comment[Array Design REF]	A-AFFY-113
Comment[AEExperimentType]	transcription profiling by array
Comment[SecondaryAccession]	CBX18
Comment[BioProject]	PRJDB7977
Comment[CIBEX Accept Date]	2007-05-07
Comment[CIBEX Public Release Date]	2007-05-07
Comment[Last Update Date]	2019-08-14