Comment[ArrayExpressAccession]	E-GEOD-1109
Investigation Title	CEA_SGF:E00002#REtsAF-Bcl2_ZVAD
Comment[Submitted Name]	CEA_SGF:E00002#REtsAF-Bcl2_ZVAD
Publication Title	Transcriptional repression by p53 promotes a Bcl-2-insensitive and mitochondria-independent pathway of apoptosis.
Publication Author List	Godefroy N, Bouleau S, Gruel G, Renaud F, Rincheval V, Mignotte B, Tronik-Le Roux D, Vayssière JL
Publication DOI	
PubMed ID	15326223
Experimental Design
Experimental Design Term Source REF
Public Release Date	2004-06-01
Experiment Description	p53 can induce apoptosis through multiple mechanisms including transactivation, transrepression or protein interactions but the determinism of the choice between them is poorly understood. In order to know the role of caspases in this choice, effect of caspase inhibition by ZVAD on p53 target genes transcription is tested by DNA chip analysis.
Date of Experiment	
Term Source Name	EFO
Term Source Version	
Term Source File	http://efo.svn.sourceforge.net/viewvc/efo/trunk/src/efoinowl/efo.owl
Person Last Name	Godefroy
Person First Name	Nelly
Person Mid Initials	
Person Email	vayssiere@genetique.uvsq.fr
Person Affiliation	Universite de Versailles
Person Phone	(33 ) 1  39 25 36 60
Person Fax	(33) 1 39 25 36 55
Person Address	Laboratoire de Genetique et de Biologie Cellulaire, Universite de Versailles, 45 Avenue des Etats Unis, Versailles, France
Person Roles	submitter
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Protocol Name	P-GSE1109-1
Protocol Description	ID_REF =  <br>VALUE = same as UNF_VALUE but with flagged values removed<br>DIA = the diameter in µm of the feature-indicator.<br>F635_Median = median feature pixel intensity at wavelength #1 (635 nm).<br>F635_Mean = mean feature pixel intensity at wavelength #1 (635 nm).<br>F635_SD = the standard deviation of the feature pixel intensity at wavelength #1 (635 nm).<br>B635_Median = the median feature background intensity at wavelength #1 (635 nm).<br>B635_Mean = the mean feature background intensity at wavelength #1 (635 nm).<br>B635_SD = the standard deviation of the feature background intensity at wavelength #1 (635 nm).<br>%_>_B635+1SD = the percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength #1 (635 nm).<br>%_>_B635+2SD = the percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength #1 (635 nm).<br>F635_%_Sat = the percentage of feature pixels at wavelength #1 that are saturated.<br>F532_Median = median feature pixel intensity at wavelength #2 (532 nm).<br>F532_Mean = mean feature pixel intensity at wavelength #2 (532 nm).<br>F532_SD = the standard deviation of the feature intensity at wavelength #2 (532 nm).<br>B532_Median = the median feature background intensity at wavelength #2 (532 nm).<br>B532_Mean = the mean feature background intensity at wavelength #2 (532 nm).<br>B532_SD = the standard deviation of the feature background intensity at wavelength #2 (532 nm).<br>%_>_B532+1SD = the percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength #2 (532 nm).<br>%_>_B532+2SD = the percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength #2 (532 nm).<br>F532_%_Sat = the percentage of feature pixels at wavelength #2 that are saturated.<br>Ratio_of_Medians_(635/532) = the ratio of the median intensities of each feature for each wavelength, with the median background subtracted.<br>Ratio_of_Means_(635/532) = the ratio of the arithmetic mean intensities of each feature for each wavelength, with the median background subtracted.<br>Median_of_Ratios_(635/532) = the median of pixel-by-pixel ratios of pixel intensities, with the median background subtracted.<br>Mean_of_Ratios_(635/532) = the geometric mean of the pixel-by-pixel ratios of pixel intensities, with the median background subtracted.<br>Ratios_SD_(635/532) = the geometric standard deviation of the pixel intensity ratios.<br>Rgn_Ratio_(635/532) = the regression ratio of every pixel in a 2-feature-diameter circle around the center of the feature.<br>Rgn_R²_(635/532) = the coefficient of determination for the current regression value.<br>Flags = the type of flag associated with a feature.<br>PRE_VALUE = the ratio of the median intensities of each feature for each wavelength, with the median background not subtracted.<br>UNF_VALUE = log ratio (log2 of PRE_VALUE)
Protocol Software	
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Protocol Type	bioassay_data_transformation
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Comment[SecondaryAccession]	GSE1109
Comment[GEOLastUpdateDate]	2005-05-28
Comment[GEOReleaseDate]	2004-05-31
Comment[ArrayExpressSubmissionDate]	2004-03-05
SDRF File	E-GEOD-1109.sdrf.txt