Comment[ArrayExpressAccession]	E-MTAB-4457
MAGE-TAB Version	1.1										
Comment[AEExperimentDisplayName]	Transcription profiling of Candida glabrata Yap transcription factor mutant strains under various stress conditions										
Investigation Title	A network of paralogous stress response transcription factors in the human pathogen Candida glabrata										
Comment[Submitted Name]	A network of paralogous stress response transcription factors in the human pathogen Candida glabrata
Experiment Description	We analyzed the role of the seven Yap transcription factors of C. glabrata by comparing the transcriptome of mutant strains deleted for these CgYAP with the transcriptome of the wild type strain. These experiments were conducted in various stress conditions.										
Experimental Design	cell type comparison design	compound treatment design									
Experimental Design Term Source REF	EFO	EFO									
Experimental Design Term Accession Number	EFO_0001745	EFO_0001755									
Experimental Factor Name	genotype	compound	dose								
Experimental Factor Type	genotype	compound	dose								
Experimental Factor Term Source REF	EFO	EFO									
Experimental Factor Term Accession Number	EFO_0000513										
Person Last Name	Devaux										
Person First Name	Frederic										
Person Mid Initials											
Person Email	frederic.devaux@upmc.fr										
Person Phone											
Person Fax											
Person Address											
Person Affiliation											
Person Roles	submitter										
Date of Experiment	2016-02-06										
Public Release Date	2016-07-14										
Protocol Name	P-MTAB-48620	P-MTAB-48603	P-MTAB-48604	P-MTAB-48605	P-MTAB-48606	P-MTAB-48607	P-MTAB-48608	P-MTAB-48609	P-MTAB-48610	P-MTAB-48611	P-MTAB-48612
Protocol Type	growth protocol	treatment protocol	treatment protocol	treatment protocol	treatment protocol	treatment protocol	treatment protocol	nucleic acid extraction protocol	nucleic acid labeling protocol	nucleic acid hybridization to array protocol	array scanning and feature extraction protocol
Protocol Term Source REF	EFO	EFO	EFO	EFO	EFO	EFO	EFO	EFO	EFO	EFO	EFO
Protocol Term Accession Number	EFO_0003789	EFO_0003969	EFO_0003969	EFO_0003969	EFO_0003969	EFO_0003969	EFO_0003969	EFO_0002944	EFO_0003813	EFO_0003815	EFO_0003814
Protocol Description	C. glabrata were grown in Yeast extract Peptone Dextrose (YPD) medium, containing 2% glucose, 1% yeast extract 1% bactopeptone.	Strains were grown in 50 mL of YPD until exponential phase (OD=0.8) and then 1 mM sodium selenite was added for 30 minutes from a 0.2 M stock solution (diluted in water).	Strains were grown in 50 mL of YPD until exponential phase (OD=0.8) and then 2 mM cadmium chloride was added for 30 minutes from a 0.2 M stock solution (diluted in water).	Strains were grown in 50 mL of YPD until exponential phase (OD=0.8) and then centrifuged, washed once in sterile water and resuspended in YPD containing 1 M NaCl at 30°C for 30 minutes.	Strains were grown in 50 mL of YPD until exponential phase (OD=0.8) and then 5 mM iron sulfate was added for 30 minutes from a 0.5 M stock solution (diluted in water).	Strains were grown in 50 mL of YPD until exponential phase (OD=0.8) and then 0.5 mM bathophenanthroline disulfonate was added for 30 minutes from a 0.2 M stock solution (diluted in water).	Strains were grown in 50 mL of YPD until exponential phase (OD=0.8).	Total RNA was extracted using the RNA easy kit (Qiagen) and following the supplier's instructions.	One microgram of RNAs from the two samples to be compared were reverse-transcribed for each independent preparation and labeled with Cy3 or Cy5 dye using the indirect labeling procedure described on www.transcriptome.ens.fr. 	The pooled Cy3 and Cy5 labelled cDNA were hybridized using the Agilent recommendations.	The arrays were scanned using an Agilent scanner with a 2 microns resolution. The features were extracted using the feature extraction software with a standard Gene Expression protocol.
Protocol Hardware											
Protocol Software											
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/									
Term Source Version											
Comment[AEExperimentType]	transcription profiling by array										
SDRF File	E-MTAB-4457.sdrf.txt