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Sample GSM414788 Query DataSets for GSM414788
Status Public on Jun 09, 2009
Title lung_AIRmax_female_urethane_mice6
Sample type RNA
 
Source name lung from AIRmax female treated with urethane
Organism Mus musculus
Characteristics tissue: lung
strain: AIRmax
gender: F
agent: urethane
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 13505.88 0
ILMN_2721178 3363.903 0
ILMN_3033922 5422.78 0
ILMN_3092673 18606.48 0
ILMN_2816356 531.574 0.002506266
ILMN_2808939 2830.3 0
ILMN_2634564 1237.228 0
ILMN_2737647 231.6613 0.2142857
ILMN_2734484 823.1671 0
ILMN_2952292 347.3539 0.02756892
ILMN_2699078 154.8304 0.8032581
ILMN_1213681 1671.284 0
ILMN_2735413 276.6731 0.09273183
ILMN_2735415 359.8197 0.02005013
ILMN_2891688 2969.705 0
ILMN_2637698 5974.814 0
ILMN_2674228 1484.693 0
ILMN_2601546 268.7267 0.1077694
ILMN_1230831 315.481 0.05012531
ILMN_2848071 371.9132 0.01503759

Total number of rows: 25697

Table truncated, full table size 721 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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