Comment[ArrayExpressAccession]	E-GEOD-40234
MAGE-TAB Version	1.1						
Public Release Date	2013-04-16
Investigation Title	Genetic Risk Factors for Type 2 Diabetes:  A Trans-Regulatory Genetic Architecture?						
Comment[Submitted Name]	Genetic Risk Factors for Type 2 Diabetes:  A Trans-Regulatory Genetic Architecture?
Experiment Description	Transcriptional Profiling of Insulin Sensitive and Insulin Resistant Samples Sixty two participants at the tail ends of the distribution of insulin sensitivity adjusted for age, gender and natural logarithm of BMI for each ethnic group separately. Individuals at tail ends were well matched for age, gender, BMI, and percent fat, but were different for insulin sensitivity. Participants were of age 20 years to 55 years, body mass index (BMI) between 19 kg/m2 and 42 kg/m2, and had all biopsies obtained in the fasting state.						
Term Source Name	ArrayExpress	EFO
Term Source File	http://www.ebi.ac.uk/arrayexpress/	http://www.ebi.ac.uk/efo/efo.owl					
Person Last Name	Gamazon	Gamazon	Elbein	Das	Rasouli	Kern	Cox
Person First Name	Eric	Eric	Steven	Swapan	Neda	Philip	Nancy
Person Mid Initials		R	C	K		A	J
Person Email	egamazon@medicine.bsd.uchicago.edu						
Person Affiliation	University of Chicago						
Person Address	University of Chicago, KCBD 3220 900 E 57th Street, Chicago, IL, USA						
Person Roles	submitter						
Protocol Name	P-GSE40234-1	P-GSE40234-3	P-GSE40234-4	P-GSE40234-2	P-GSE40234-5		
Protocol Description	Arrays were processed and background corrected with default settings of the Agilent Feature Extraction software v.9.5.3.1 (Agilent Technologies). Raw intensity data from each gene were quantile normalized to the 75th percentile intensity of each array. Only transcripts with values greater than background intensity in all samples were included for analysis in the current study. ID_REF =  VALUE = Quantile normalized signal intensity to the 75th percentile	RNA was extracted, and labeled cRNA prepared by linear amplification of the poly(A)+ RNA population within the total RNA sample. Total RNA (1 M-5g) was reverse transcribed after priming with a DNA oligonucleotide containing the T7 RNA polymerase promoter 5M-bM-^@M-^Y to a d(T)24 sequence. After second-strand cDNA synthesis and purification of double-stranded cDNA, in vitro transcription was performed using T7 RNA polymerase.	We fragmented 1 M-5g of purified cRNA to uniform size and hybridized to Human Whole Genome 4x44k arrays (Agilent Technologies, Santa Clara, CA, USA) at 37M-0 C for 18 hrs,	Total RNA extracted using Trizol following manufacturer's instructions	Scanned with a G2565 Microarray Scanner (Agilent Technologies)		
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	nucleic acid extraction protocol	array scanning protocol		
Experimental Factor Name	PHENOTYPE						
Experimental Factor Type	phenotype						
Publication Title	Genetic risk factors for type 2 diabetes: a trans-regulatory genetic architecture?						
Publication Author List	Elbein SC, Gamazon ER, Das SK, Rasouli N, Kern PA, Cox NJ						
PubMed ID	22958899						
Publication DOI	10.1016/j.ajhg.2012.08.002						
Comment[SecondaryAccession]	GSE40234						
Comment[GEOReleaseDate]	2013-04-16						
Comment[ArrayExpressSubmissionDate]	2012-08-20						
Comment[GEOLastUpdateDate]	2013-04-16						
Comment[AEExperimentType]	transcription profiling by array						
SDRF File	E-GEOD-40234.sdrf.txt