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Sample GSM572227 Query DataSets for GSM572227
Status Public on Dec 31, 2013
Title Cortex-HI-24h-Rep3
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 3
4514990040_F
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 0.65349543
ILMN_2707227 1.0862461
ILMN_2896528 0.8832845
ILMN_2721178 0.9406314
ILMN_1227723 1.1630484
ILMN_3033922 1.499949
ILMN_3092673 1.1377875
ILMN_2730714 1.1609645
ILMN_3162224 1.0688872
ILMN_2816356 0.95195574
ILMN_2808939 0.8928192
ILMN_2634564 0.99529856
ILMN_1216623 1.0846233
ILMN_1215157 1.1882433
ILMN_1228777 0.8827765
ILMN_2737647 1.091633
ILMN_1216425 0.9145906
ILMN_2734484 1.2165086
ILMN_2652961 0.7906505
ILMN_2952292 1.1443956

Total number of rows: 25697

Table truncated, full table size 581 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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