Comment[ArrayExpressAccession]	E-GEOD-11625
Investigation Title	Ecdysone Response Timecourse in Kc Cells
Comment[Submitted Name]	Ecdysone Response Timecourse in Kc Cells
Publication Title	Genomic mapping of binding regions for the Ecdysone receptor protein complex.
Publication Author List	Gauhar Z, Sun LV, Hua S, Mason CE, Fuchs F, Li TR, Boutros M, White KP
Publication DOI	
PubMed ID	19237466
Experimental Design	transcription profiling by array
Experimental Design Term Source REF	EFO
Public Release Date	2008-06-12
Experiment Description	Kc167 Cells were plated at 0.5x106/ml and grown at 23.50C. They were treated with 20-HE (Sigma) at a final concentration of 5x10-7M. The reference sample was total RNA isolated at 0 hr. after treatment. The experimental samples were total RNA isolated from cells treated for 1, 3, 6, 12, 24, and 48 hours.  Samples were taken at 0hr, 1hr, 3hr, 6hr, 12hr, 24hr and 48hr. Briefly, cells were spun down and Total mRNA was extracted with OligodT (Ambion) nd reverse transcribed in the presence of oligodeothymidine and random hexamers and labeled to the whole genome in-house cDNA microarray and ecdysone responsive genes were identified. Ecdysone responsive genes were identified at each timepoint using a Limma t-test. 							
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Term Source Name	EFO
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Person Last Name	Gauhar	Sun	Gauhar	Hua	Li	Mason	White	
Person First Name	Zareen	Ling	Zareen	Sujun	Tong-Ruei	Christopher	Kevin	
Person Mid Initials		V					P	
Person Email	zareen.gauhar@gmail.com							
Person Affiliation	Yale							
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Person Address	Genetics, Yale, 333 Cedar St, 386 NSB, New Haven, CT, USA							
Person Roles	submitter							
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Protocol Name	P-GSE11625-1	P-GSE11625-5	P-GSE11625-7	P-GSE11625-4	P-GSE11625-2	P-GSE11625-3	P-GSE11625-6	P-GSE11625-8
Protocol Description	ID_REF = Identifier reference, ID from the platform id<br>VALUE = log2 (EXP/REF)<br>CH1I_MEDIAN = F532 Median: median feature pixel intensity at wavelength (532 nm)<br>CH1B_MEDIAN = B532 Median: median feature background intensity at wavelength (532 nm)<br>CH2I_MEDIAN = F635 Median: median feature pixel intensity at wavelength (635 nm)<br>CH2B_MEDIAN = B635 Median: median feature background intensity at wavelength (635 nm)	As described in Sun, L.V. etal PNAS 2003	as described in Sun, L.V. etal PNAS 2003	As described in Sun, L.V. etal PNAS 2003	Total RNA was extracted with Trizol (Invitrogen) and mRNA was prepared with oligo-dT cellulose (Ambion).	The mRNA was labeled with ith Cy3/5 using SuperScript (Invitrogen).	Data processing VALUE is log2 (CY5/CY3; exp/ref)	Data processing VALUE is log2 (CY3/CY5; ref/exp)
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Protocol Type	bioassay_data_transformation	image_aquisition	hybridization	hybridization	nucleic_acid_extraction	labeling	feature_extraction	feature_extraction
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Comment[SecondaryAccession]	GSE11625							
Comment[GEOLastUpdateDate]	2010-01-11
Comment[GEOReleaseDate]	2008-06-11
Comment[ArrayExpressSubmissionDate]	2008-05-29
SDRF File	E-GEOD-11625.sdrf.txt