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Sample GSM740853 Query DataSets for GSM740853
Status Public on Jun 14, 2011
Title c1
Sample type RNA
 
Source name control 1 (no ventilation)
Organism Mus musculus
Characteristics strain: NOD/shi
age: 6-12 weeks
tissue: whole lung
ventilation: no
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from lung tissues with Trizol (Invitrogen). RNA clean-up and DNase I treatment was performed with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description replicate 1
Data processing Microarray expression profiles were generated using Illumina REF8 mouse arrays according to the manufacturer’s protocol. The data were normalised using quantile normalisation with IlluminaGUI in R. For statistical analysis we applied Welch's two-sample t-tests to find genes with significant expression changes. The P values from the t-tests were adjusted for multiple testing using the false discovery rate (FDR) controlling procedure of Benjamini. Genes which have the adjusted P values less than 0.05 were considered significantly changed .
 
Submission date Jun 13, 2011
Last update date Jun 14, 2011
Contact name Tamas Dolinay
E-mail(s) tdolinay@hotmail.com
Phone 4125278764
Organization name University of Pennsylvania
Department Bioengineering
Lab Susan Margulies
Street address 220 S. 33rd St., Towne building, Room 390
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL6885
Series (1)
GSE29920 Mouse gene expression profiling in ventilator-induced lung injury

Data table header descriptions
ID_REF
VALUE quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 812.5529 0
ILMN_2721178 186.5778 0
ILMN_3033922 262.51 0
ILMN_3092673 1301.981 0
ILMN_2816356 26.61427 0.1654135
ILMN_2808939 147.7943 0
ILMN_2634564 109.6347 0
ILMN_2737647 31.1609 0.01378446
ILMN_2734484 89.09657 0
ILMN_2952292 37.80508 0.001253133
ILMN_2699078 26.87776 0.1466165
ILMN_1213681 121.132 0
ILMN_2735413 28.93392 0.05263158
ILMN_2735415 30.5318 0.01879699
ILMN_2891688 192.2847 0
ILMN_2637698 506.052 0
ILMN_2674228 101.5124 0
ILMN_2601546 29.77684 0.02506266
ILMN_1230831 25.37113 0.3032582
ILMN_2848071 29.18641 0.04135338

Total number of rows: 25697

Table truncated, full table size 722 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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