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Sample GSM572226 Query DataSets for GSM572226
Status Public on Dec 31, 2013
Title Cortex-HI-24h-Rep2
Sample type RNA
 
Source name Infarct Cortex
Organism Mus musculus
Characteristics strain: C57/Bl6
age: 8 days
treatment: Hypoxic ischemia
time point: 24h
tissue: brain cortex
Treatment protocol Pups were anesthetized with 1.5% isoflurane in 30% O2/70% N2 mixture and underwent unilateral HI. The right common carotid artery was exposed through a ventral midline neck incision and permanently occluded by electrocoagulation (Aaron Medical Industries Inc, Florida, USA), where the occlusion was verified The wound was sutured and mouse pups were returned to their mother for 1.5–2 h. Sham control rats (n = 4) underwent the identical procedure, without carotid artery occlusion. Pups were then placed in an 8% O2/92% N2 humidified chamber at 37°C for 1 h. This combined procedure results in select neuronal damage or infarction in the hemisphere ipsilateral to the carotid occlusion, whereas hypoxia alone (contralateral hemisphere) does not produce any significant brain injury (reference). Following the HI or sham surgery procedure, all pups were returned to their dam and kept under standard housing conditions for the remainder of the study.
Growth protocol All animal work conducted in this study was approved by the University of New South Wales (UNSW) Animal Ethics and Experimentation Committee and performed in accordance with the guidelines of the National Health and Medical Research Council (Australia). C57 Black 6 mouse pups were obtained from Animal Resources Centre (Perth, WA) and were housed under standard housing conditions in the UNSW Biological Resources Centre animal facility throughout experiments.
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 2
4514990042_E
Data processing The data were normalised using median normalisation with GeneSpring Ver 7.3
 
Submission date Jul 29, 2010
Last update date Dec 31, 2013
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)
GSE23317 Global transcriptomic profiling of hypoxic ischemia in an in vivo neonatal mouse model: cortex
GSE23333 Global transcriptomic profiling of hypoxic ischemia in an in vivo neonatal mouse model

Data table header descriptions
ID_REF
VALUE Median normalisation

Data table
ID_REF VALUE
ILMN_1248788 0.61817336
ILMN_2707227 1.1283202
ILMN_2896528 0.9078055
ILMN_2721178 0.8514137
ILMN_1227723 1.1748986
ILMN_3033922 1.183498
ILMN_3092673 1.1510613
ILMN_2730714 1.228712
ILMN_3162224 1.05918
ILMN_2816356 0.94870955
ILMN_2808939 0.8492225
ILMN_2634564 1.0256693
ILMN_1216623 1.2807893
ILMN_1215157 1.0695599
ILMN_1228777 1.0653905
ILMN_2737647 1.1039274
ILMN_1216425 0.83965254
ILMN_2734484 1.3786488
ILMN_2652961 1.0296742
ILMN_2952292 1.1247007

Total number of rows: 25697

Table truncated, full table size 580 Kbytes.




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

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