Comment[GEAAccession]	E-GEAD-996
MAGE-TAB Version	1.1
Investigation Title	Molecular determinants for the cell death mode (CBX131)
Experiment Description	We found that activation of ASC in COLO205 human colon adenocarcinoma cell line induces necrosis, while that in NUGC-4 human stomach cancer cell line induces apoptosis. CLC12N2 is a COLO205-derived stable cell line that expresses chimeric protein (C12N2) consisting of the CARD from CARD12 (NLRC4) and the NOD and LRRs from Nod2 (NLRC2), a sensor for muramyl dipeptide (MDP). MDP stimulation induces C12N2-mediated oligomerization of ASC and necrotic cell death in the original CLC12N2 cell line (clone 2). When we isolated subclones of CLC12N2, we found that MDP stimulation induced apoptosis in some subclones (such as clone 215 and 431), while the same stimulation induced necrosis in others (such as clone 144). In these experiments, we compared the expression levels of genes between CLC12N2 clones that exhibit necrosis and those exhibit apoptosis in response to MDP stimulation. We also compared the expression levels of genes between COLO205 and NUGC-4 cells.
Experimental Design	cell type comparison design
Experimental Factor Name	sample_name
Experimental Factor Type	sample_name
Person Last Name	Motani	Suda
Person First Name	Kou	Takashi
Person Affiliation	Kanazawa University	
Person Roles	submitter	
Public Release Date	2025-01-31
PubMed ID	21832064
Protocol Name	P-GEAD-4258	P-GEAD-4259	P-GEAD-4260	P-GEAD-4261	P-GEAD-4262	P-GEAD-4263	P-GEAD-4264	P-GEAD-4265
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	growth protocol	treatment protocol
Protocol Description	none	RNA was extracted from cells using RNeasy Plus Mini Kit (Qiagen). Contaminated DNA was then removed using TURbO DNA-free kit (Ambion). Quality of RNA was checked using Agilent 2100 bioanalyzer.	RNA was amplified and labeled using Quick Amp Labeling Kit, Two-Color (Agilent).	Hybridization was performed according to the manufacturer?fs protocol (http://www.chem.agilent.com/scripts/LiteraturePDF.asp?iWHID=48835) at 65oC for 17 hr.	Scanning was performed using Agilent Microarray Scanner.	Image analysis was performed using the Feature Extraction software., Rank Consistency Method, Linear&LOWESS method	10% FCS-RPMI supplemented with pen/str. 5% CO2, 37oC, humidified	none
SDRF File	E-GEAD-996.sdrf.txt
Comment[Number of channel]	single-channel
Comment[Array Design REF]	A-GEAD-201
Comment[AEExperimentType]	transcription profiling by array
Comment[SecondaryAccession]	CBX131
Comment[BioProject]	PRJDB20097
Comment[CIBEX Accept Date]	2010-01-01
Comment[CIBEX Public Release Date]	2011-08-09
Comment[Last Update Date]	2025-01-31