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Sample GSM570197 Query DataSets for GSM570197
Status Public on Jan 10, 2011
Title Cortex-I/R-24h-Rep1_WT-MCAO
Sample type RNA
 
Source name Infarct Cortex
Organism Mus musculus
Characteristics strain: C57/Bl6
genotype/variation: wild-type
age: 8-10 weeks
treatment: ischemia/reperfusion (I/R) injury
treatment time-point: 24h
Treatment protocol WT mice underwent the mid-cerebral artery occlusion (MCAO) model of cerebral ischemia-reperfusion injury as previously mentioned (Connolly et al. 1996). In experiments examining biochemical end-points and infarct size, a 2-hour ischemic period was used. Reduction in cerebral blood flow upon intraluminal suture insertion was confirmed with laser Doppler. Control sham animals were subjected to the initial anesthetic and neck incision only. All animals were put back onto a 37°C heat pad post-surgery to recover from anesthesia. After 2-hour of ischemic period, the animals underwent reperfusion by withdrawal of the suture under anesthetic condition and return onto the heat pad until euthanized at the designated time-points of 2, 8 or 24 hours.
Growth protocol All animal procedures were approved by the Monash University Animal Ethics Committee. Male WT mice on a C57BL/6J background of 8–10 weeks were employed in this study. Gpx1-/- mice demonstrate no overt phenotype and there exist no differences in the cerebral vascular anatomy between the Gpx1-/- mice and their WT counterparts (Crack et al. 2001; de Haan et al. 1998).
Extracted molecule total RNA
Extraction protocol RNA was extracted and cleaned up with QIAGEN miRNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with E-gene HDA-GT12 genetic analyzer.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol with a hybridization duration of 17h.
Scan protocol Standard Illumina scanning protocol with a pmt value=478
Description Replicate 1
4421339018_H
Data processing The data were normalised using median normalisation with GeneSpring Ver 7.3
 
Submission date Jul 26, 2010
Last update date Jan 10, 2011
Contact name Minghui Jessica Chen
Organization name Menzies Research Institute
Department Neuroscience group
Lab A/P Steve Cheung
Street address Menzies Research Institute, University of Tasmania, Private Bag 24
City Hobart
State/province Tasmania
ZIP/Postal code 7001
Country Australia
 
Platform ID GPL6885
Series (2)
GSE23160 Global transcriptomic profiling of ischemic/reperfusion injury in an in vivo wild-type mouse model.
GSE23163 Global transcriptomic profiling of ischemic/reperfusion injury in an in vivo mouse model.

Data table header descriptions
ID_REF
VALUE Median normalisation, p<0.05

Data table
ID_REF VALUE
ILMN_1248788 0.9381452
ILMN_2707227 1.1046832
ILMN_2896528 0.8624432
ILMN_2721178 0.92975277
ILMN_1227723 2.0498772
ILMN_3033922 0.9688754
ILMN_3092673 1.0523658
ILMN_2730714 0.9815747
ILMN_3162224 0.9999679
ILMN_2816356 0.9338499
ILMN_2808939 0.9431968
ILMN_2634564 1.2121514
ILMN_1216623 1.0395418
ILMN_1215157 1.1510689
ILMN_1228777 0.96366113
ILMN_2737647 0.87436193
ILMN_1216425 0.88858527
ILMN_2734484 1.1202728
ILMN_2652961 0.9439175
ILMN_2952292 1.1153053

Total number of rows: 25697

Table truncated, full table size 581 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
Raw data are available on Series record

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