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Sample GSM414789 Query DataSets for GSM414789
Status Public on Jun 09, 2009
Title lung_AIRmax_female_urethane_mice5
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
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
VALUE Bead Studio calculated average signal (cubic spline normalized)
Detection Pval BeadStudio Detection p-value

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 13535.13 0
ILMN_2721178 3139.245 0
ILMN_3033922 4677.834 0
ILMN_3092673 18506.39 0
ILMN_2816356 528.6921 0
ILMN_2808939 2744.682 0
ILMN_2634564 1531.707 0
ILMN_2737647 247.7282 0.1516291
ILMN_2734484 1182.663 0
ILMN_2952292 393.6517 0.01253133
ILMN_2699078 187.1914 0.4661654
ILMN_1213681 1772.013 0
ILMN_2735413 251.3649 0.1441103
ILMN_2735415 297.4939 0.06015038
ILMN_2891688 2803.005 0
ILMN_2637698 6246.464 0
ILMN_2674228 1464.955 0
ILMN_2601546 315.0489 0.05012531
ILMN_1230831 378.7732 0.01629073
ILMN_2848071 364.2618 0.02005013

Total number of rows: 25697

Table truncated, full table size 719 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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