Comment[ArrayExpressAccession]	E-GEOD-46988
MAGE-TAB Version	1.1					
Public Release Date	2013-10-16
Investigation Title	Expression data from rat spinal cord injury and mesenchymal stromal cells (MSC) or olfactory ensheathing cells (OEC) transplantation					
Comment[Submitted Name]	Expression data from rat spinal cord injury and mesenchymal stromal cells (MSC) or olfactory ensheathing cells (OEC) transplantation
Experiment Description	We analyzed the changes in the spinal cord transcriptome after a spinal cord contusion injury and MSC or OEC transplantation. The cells were injected immediately or 7 days after the injury. The mRNA of the spinal cord injured segment was extracted and analyzed by microarray at 2 and 7 days after cell grafting. 52 total samples were analyzed in 13 different groups. Each group include 4 samples and each one were analyzed as a biological replica. The intact animals were used as control of injury. The vehicle (VHC) groups were used as control of transplantation procedure. The MSC or OEC graft were injected at the day of injury (acute graft) or seven days after injury (delayed graft). The samples from engrafted animals were obtained at 2 or 7 days after cell transplantation. To determine the effects of MSC or OEC transplantation, the expression value of each engrafted sample were compared with correspondent VHC group.					
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	Navarro	Torres-Espín	Hernández	Navarro		
Person First Name	Xavier	Abel	Joaquim	Xavier		
Person Email	xavier.navarro@uab.cat					
Person Affiliation	Univarsitat Autònoma de Barcelona					
Person Address	Univarsitat Autònoma de Barcelona, Edif. M, Campus UAB, Bellaterra, Spain					
Person Roles	submitter					
Protocol Name	P-GSE46988-1	P-GSE46988-4	P-GSE46988-5	P-GSE46988-2	P-GSE46988-3	P-GSE46988-6
Protocol Description	CEL files obtained from scanner were normalized with RMA algorithm using R software and bioconductor associated packages. ID_REF =  VALUE = RMA normalized	samples were labeled with GeneChip Terminal Labeling kit following protocol specifications	samples were hyb in Rat Gene Array 1.1 ST from Affymetrix, for 16 hours at 45 ºC and 60 rpm. Samples were washed and stained in the GeneTitan platform following manufacturer specifications.	vehicle (VHC), mesenchymal stromal cells (MSC) or olfactory ensheathing cells (OEC) transplantation after spinal cord injury	Spinal cord segment (5mm long) centered in the contusion epicenter was harvested and maintained in RNA-latter solution (Qiagen, Barcelona, Spain). The samples were processed for mRNA analysis following the manufacturer instructions. The total RNA of each sample was extracted with RNeasy mini kit (Qiagen), including a DNase step (RNase free DNase set, Qiagen, Barcelona, Spain).	Arrays were scanned in the GeneTitan platform following manufacturer specifications
Protocol Type	normalization data transformation protocol	labelling protocol	hybridization protocol	sample treatment protocol	nucleic acid extraction protocol	array scanning protocol
Experimental Factor Name	TREATMENT	TIME EXTRACTION	TIME GRAFT			
Experimental Factor Type	treatment	time extraction	time graft			
Comment[SecondaryAccession]	GSE46988					
Comment[GEOReleaseDate]	2013-10-16					
Comment[ArrayExpressSubmissionDate]	2013-05-15					
Comment[GEOLastUpdateDate]	2013-10-17					
Comment[AEExperimentType]	transcription profiling by array					
SDRF File	E-GEOD-46988.sdrf.txt