Comment[ArrayExpressAccession]	E-GEOD-44991
MAGE-TAB Version	1.1				
Public Release Date	2013-10-21
Investigation Title	Gene expression profiling of articular cartilage reveals functional pathways and networks of candidate genes for osteochondrosis in pigs				
Comment[Submitted Name]	Gene expression profiling of articular cartilage reveals functional pathways and networks of candidate genes for osteochondrosis in pigs
Experiment Description	Osteochondrosis disorder is characterized by a failure of endochondral ossification of the articular-epiphyseal cartilage and the physeal growth cartilage. The number and identity of relevant genes are unknown. Simultaneously, 24,123 probe-sets were screened, of which 12,292 had present in at least 50% of the samples of either affected or non-affected and were used for further analysed of differential expression. Total RNAs of articular cartilage tissues from  affected and non-affected sib-pairs animals were hybridized to Affymetrix Porcine Genome Arrays.				
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	Wimmers	Wimmers	Ponsuksili	Murani	Rangkasenee
Person First Name	Klaus	Klaus	Siriluck	Eduard	Noppawan
Person Email	wimmers@fbn-dummerstorf.de				
Person Affiliation	Leibniz Institute for Farm Animal Biology (FBN)				
Person Phone	0049 3820868700				
Person Address	Leibniz Institute for Farm Animal Biology (FBN), Wilhelm-Stahl-Allee 2, Dummerstorf, Germany				
Person Roles	submitter				
Protocol Name	P-GSE44991-1	P-GSE44991-3	P-GSE44991-4	P-GSE44991-2	P-GSE44991-5
Protocol Description	Data were analysed with Affymetrix GCOS 1.1.1 software using global scaling to a target signal of 500. ID_REF =  VALUE = by PLIER algorithm	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 500 ng total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 42M-0C on Affymetrix GeneChip Porcine Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.	Total RNA was isolated using TRI Reagent (Sigma, Taufkirchen, Germany) according to the manufacturerM-bM-^@M-^Ys protocol. After DNaseI treatment the RNA was cleaned up using the RNeasy Kit (Qiagen, Hilden, Germany).	Scanning using the GeneChip scanner 3000 were performed according to Affymetrix protocols
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	STATUS OF OSTEOCHONDROSIS DISODER	ORGANISM PART			
Experimental Factor Type	status of osteochondrosis disoder	organism part			
Publication Title	Gene expression profiling of articular cartilage reveals functional pathways and networks of candidate genes for osteochondrosis in pigs.				
Publication Author List	Rangkasenee N, Murani E, Schellander K, Cinar MU, Ponsuksili S, Wimmers K				
PubMed ID	23922127				
Publication DOI	10.1152/physiolgenomics.00055.2013				
Comment[SecondaryAccession]	GSE44991				
Comment[GEOReleaseDate]	2013-10-21				
Comment[ArrayExpressSubmissionDate]	2013-03-08				
Comment[GEOLastUpdateDate]	2013-10-21				
Comment[AEExperimentType]	transcription profiling by array				
SDRF File	E-GEOD-44991.sdrf.txt