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Sample GSM1575590 Query DataSets for GSM1575590
Status Public on Jan 02, 2015
Title Oxygen control, biological rep 4
Sample type RNA
 
Source name Brain cortex from rat exposed to oxygen
Organism Rattus norvegicus
Characteristics strain: Sprague Dawley
gender: male
age: 20 weeks
weight: 250-300g
sample group: Oxygen control
tissue: brain cortex
Treatment protocol Rats were exposed to isoflurane in oxygen at a concentration of 2% (1.4 MAC) or pure oxygen for 15 minutes and allowed to recover for 6 hours. Brain was removed and cortex dissected and placed into RNA later (Invitrogen, Paisly, UK) for RNA preservation.
Growth protocol 20 week old Sprague Dawley rats between 250-300g
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIZOL (Invitrogen, Paisly, UK). Total RNA was further purified using Quiagen column based methodology (Quiagen Ltd, Manchester, UK)
Label biotin
Label protocol Biotinylated cRNA was prepared according to Affymetrix standard protocol using 10ug total RNA
 
Hybridization protocol Following fragmentation, 10ug of cRNA were hybridized for 16 hours @ 45oC to rat 230 2.0 genechips
Scan protocol Following hybridization and staining, gene chips were scanned using at 3mm resolution using a gene array scanner
Description Con4
Data processing The data were analysed using Affymetrix microarray software suite 5.0 (MAS 5.0) using default analysis setting and global scaling as normalization method and Dchip ver 2010 using a baseline array for normalization and model based expression
affymetrix-algorithm-name = ExpressionStat
affymetrix-algorithm-version = 5.0
program-name = Expression Console
program-id = 1.4.0.38
 
Submission date Dec 31, 2014
Last update date Jan 02, 2015
Contact name Damon Lowes
E-mail(s) damon.lowes@outlook.com
Phone +441561362361
Organization name University of Aberdeen
Department Immunology, Infection and inflammation
Lab Anaesthesia and Intensive care
Street address IMS, Foresterhill
City Aberdeen
State/province Aberdeenshire
ZIP/Postal code AB252ZD
Country United Kingdom
 
Platform ID GPL1355
Series (1)
GSE64617 Gene expression and complex network analyis of effects of anaethesia

Data table header descriptions
ID_REF
VALUE ExpressionStat 5.0
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 451.154 P 0.000753643
AFFX-BioB-M_at 554.983 P 5.16732e-05
AFFX-BioB-3_at 356.412 P 5.16732e-05
AFFX-BioC-5_at 1245.74 P 6.01289e-05
AFFX-BioC-3_at 1553.98 P 4.42873e-05
AFFX-BioDn-5_at 2008.31 P 5.16732e-05
AFFX-BioDn-3_at 4812.14 P 8.14279e-05
AFFX-CreX-5_at 12372.2 P 5.16732e-05
AFFX-CreX-3_at 13903.1 P 4.42873e-05
AFFX-DapX-5_at 8.29598 A 0.195266
AFFX-DapX-M_at 11.8092 A 0.354453
AFFX-DapX-3_at 2.29206 A 0.883887
AFFX-LysX-5_at 1.46055 A 0.340661
AFFX-LysX-M_at 15.5888 A 0.250796
AFFX-LysX-3_at 9.59941 A 0.0780018
AFFX-PheX-5_at 0.823109 A 0.860518
AFFX-PheX-M_at 1.42542 A 0.883887
AFFX-PheX-3_at 17.6946 A 0.39692
AFFX-ThrX-5_at 4.70788 A 0.48511
AFFX-ThrX-M_at 3.4168 A 0.672921

Total number of rows: 31099

Table truncated, full table size 952 Kbytes.




Supplementary file Size Download File type/resource
GSM1575590_Con4.CEL.gz 2.8 Mb (ftp)(http) CEL
GSM1575590_Con4.CHP.gz 257.5 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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