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Sample GSM414797 Query DataSets for GSM414797
Status Public on Jun 09, 2009
Title lung_AIRmax_female_saline_mice12
Sample type RNA
 
Source name lung from AIRmax female treated with saline
Organism Mus musculus
Characteristics tissue: lung
strain: AIRmax
gender: F
agent: saline
Treatment protocol two intraperitoneal injections of 1 mg/g body weight urethane or saline solution
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with RNeasy Midi kit (Qiagen, Valencia, CA) from normal lung parenchyma and purified with RNeasy MinElute CleanUP Kit (Qiagen). RNA concentration was determined with a Nanodrop spectrophotometer (NanoDrop, Wilmington, DE) and RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies Inc., Santa Clara, CA)
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 no additional information
Data processing The data were normalised using cubic spline normalization with Illumina's BeadStudio Gene Expression Module v3.4, July 2008 (see VALUE column below).
The data were then filtered by detection p-value (p<0.05). A matrix of the normalized, filtered data is linked as supplementary file at the foot of the Series record.
 
Submission date Jun 09, 2009
Last update date Jun 09, 2009
Contact name Loris De Cecco
E-mail(s) loris.dececco@istitutotumori.mi.it
Organization name IRCSS Istituto Nazionale Tumori
Street address via Venezian 1
City Milan
ZIP/Postal code 20133
Country Italy
 
Platform ID GPL6885
Series (1)
GSE16510 Normal lung transcriptome distinguishes mouse lines with different susceptibility to inflammation and to tumorigenesis

Data table header descriptions
ID_REF
VALUE Bead Studio calculated average signal (cubic spline normalized)
Detection Pval BeadStudio Detection p-value

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 14032.1 0
ILMN_2721178 3933.165 0
ILMN_3033922 6459.354 0
ILMN_3092673 22446.84 0
ILMN_2816356 574.4432 0.005012531
ILMN_2808939 3221.717 0
ILMN_2634564 1759.091 0
ILMN_2737647 271.7492 0.1340852
ILMN_2734484 759.3845 0
ILMN_2952292 434.8765 0.01629073
ILMN_2699078 152.9563 0.8408521
ILMN_1213681 2153.334 0
ILMN_2735413 297.9803 0.09398496
ILMN_2735415 382.8114 0.02756892
ILMN_2891688 2738.721 0
ILMN_2637698 5551.207 0
ILMN_2674228 1850.291 0
ILMN_2601546 298.3773 0.09398496
ILMN_1230831 353.6278 0.03884712
ILMN_2848071 316.7966 0.0651629

Total number of rows: 25697

Table truncated, full table size 727 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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