Comment[ArrayExpressAccession]	E-MTAB-1491
Investigation Title	HuSE2,2Dvs3D
Comment[Submitted Name]	HuSE2,2Dvs3D
Experiment Description	HCV proliferation is closely related to three-dimentional cellular condition. In case of blood-borne (bb) HCV culture in HuS-E2 cells, bbHCV was reproduced only from 3D-cultured cells in hollow fibers. Thus, in order to identify novel factors which support HCV proliferation under three-dimentional condition, we compared gene expression profile between 2D- and 3D-cultured HuS-E/2 cells with 3D-gene  Human oligo chip 25k (Toray, Tokyo, Japan).
Experimental Design	cell_type_comparison_design	in_vitro_design	co-expression_design
Comment[AEExperimentType]	transcription profiling by array
Comment[AEExperimentDisplayName]	Transcription profiling by array of human HuS-E/2 2D and 3D cultered cells to identify novel factors which support HCV proliferation
Experimental Factor Name	growth condition
Experimental Factor Type	growth condition
Quality Control Type	dye_swap
Public Release Date	2013-12-10
Person Last Name	 Abe
Person First Name	Yuichi
Person Mid Initials
Person Email	yabe.m08@lif.kyoto-u.ac.jp
Person Phone	(+81)757514046
Person Address	Kawaharamachi 53, Syogoin, Sakyo-ku, Kyoto-shi, Kyoto-hu, Japan
Person Affiliation	Kyoto university
Person Roles	submitter
PubMed ID	23684750
Publication Author List	Abe Y, Aly HH, Hiraga N, Imamura M, Wakita T, Shimotohno K, Chayama K, Hijikata M 
Publication Title	Thromboxane A2 synthase inhibitors prevent production of infectious hepatitis C virus in mice with humanized livers
Publication Status
Protocol Name	P-MTAB-30881	P-MTAB-30882	P-MTAB-30883	P-MTAB-30884	P-MTAB-30885	P-MTAB-30886	P-MTAB-30887	P-MTAB-30888
Protocol Type	grow	specified_biomaterial_action	nucleic_acid_extraction	labeling	hybridization	image_acquisition	bioassay_data_transformation	bioassay_data_transformation
Protocol Description	HuS-E/2 cells were cultured in E2 medium as previously desrived (Aly H. H. el al., 2008, J. Hepatol.).  	HuS-E/2 cells were cultured in Hollow Fibers (Toyobo, Kyoto, Japan) according to manufacturer's  protocol for 10 days.	Total RNA from 2D- and 3D-cultured HuS-E/2 cells were purified with Sepasol 1 super (Nacalai tesque, Kyoto, Japan) according to manufacturer's protocol.	This step was performed by Toray Co.	This step was performed by Toray Co.	This step was performed by Toray Co.	This step was performed by Toray Co.	This step was performed by Toray Co.
SDRF File	E-MTAB-1491.sdrf.txt
Publication DOI	10.1053/j.gastro.2013.05.014