MAGE-TAB Version	1.1					
Experiment Description	Expression data from microdissected glomeruli to examine the role of hypoxia in glomerulosclerosis of human Nephrosclerosis (NSC). Human Kidney biopsies of patients with NSC (n=14) and TN (n=4) were selected for RNA extraction and hybridization on Affymetrix microarrays. Gene expression data was then analysed using Genepattern and Genomatix software suites which revealed that CXCR4/CXCL12 plays a role in human NSC and therefore indicate that hypoxia contributes to glomerular damage in NSC. This dataset is part of the TransQST collection.					
Public Release Date	2010-03-30					
Investigation Title	Human nephrosclerosis triggers a hypoxia-related glomerulopathy.					
Publication Title	Human nephrosclerosis triggers a hypoxia-related glomerulopathy.					
Publication Author List	Neusser MA, Lindenmeyer MT, Moll AG, Segerer S, Edenhofer I, Sen K, Stiehl DP, Kretzler M, Gröne HJ, Schlöndorff D, Cohen CD					
PubMed ID	20019191					
Publication DOI	10.2353/ajpath.2010.090268					
Term Source Name	ArrayExpress					
Term Source File	http://www.ebi.ac.uk/arrayexpress/					
Person Last Name	Sankaranarayanan	Neusser	Kretzler			
Person First Name	Preethi	Matthias	Matthias			
Person Mid Initials		A				
Person Email	spreeti@umich.edu					
Person Affiliation	University of Michigan					
Person Address	Department of Internal Medicine - Division of Nephrology, University of Michigan, 1552 MSRB2,1150 W. Medical Center Drive, Ann Arbor, MI, USA					
Person Roles	submitter					
Protocol Name	P-GSE20602-3	P-GSE20602-5	P-GSE20602-1	P-GSE20602-4	P-GSE20602-2	P-GSE20602-6
Protocol Description	Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).	Affymetrix Expression Analysis Technical Manual protocol was followed	RMA-Express was used for normalization and Genepattern and Genomatix software suites were used for statistical analysis ID_REF =  VALUE = log2-RMA normalized	Affymetrix Expression Analysis Technical Manual protocol was followed	Silica Gel column extraction of total RNA was performed according to the manufacturer's instructions.(Agilent Technologies, Waldbronn, Germany)Total RNA was isolated from microdissected glomeruli, reverse-transcribed, and linearly amplified.	Metadata for samples found here: http://europepmc.org/articles/PMC2808068/table/T1-8379/
Protocol Type	labelling protocol	array scanning protocol	normalization data transformation protocol	hybridization protocol	nucleic acid extraction protocol	sample collection protocol
Comment[SecondaryAccession]	GSE20602					
Comment[ArrayExpressAccession]	E-GEOD-20602					
Comment[GEOReleaseDate]	2010-03-30					
Comment[ArrayExpressSubmissionDate]	2010-03-02					
Comment[GEOLastUpdateDate]	2018-08-10					
Comment[AEExperimentType]	transcription profiling by array					
Comment[SecondaryAccession]	GDS3712					
						
SDRF File	E-GEOD-20602.sdrf.txt					
						
Experimental Factor Name	disease	sampling site				
Experimental Factor Type	disease	sampling site