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Sample GSM1052772 Query DataSets for GSM1052772
Status Public on Dec 13, 2012
Title Smoke rep 3
Sample type RNA
Source name Adult ovary from cigarette smoke exposed mouse
Organism Mus musculus
Characteristics tissue: Ovary
genetic background: C57BL/6
treatment: cigarette smoke
Treatment protocol Twenty-one C57BL/6 5 week old female mice were simultaneously exposed to cigarette smoke [twelve 3R4F reference cigarettes (University of Kentucky, USA) twice/day, 2.7 mg particulate matter, five times per week, for 12-18 weeks] using a custom-designed and purpose-built nose-only, directed flow inhalation and smoke-exposure system (CH Technologies, NJ, USA) housed in a fume and laminar flow hood. Each exposure lasted 60 minutes. Control mice received room air.
Growth protocol All experimental procedures involving the use of animals were performed with the approval of the University of Newcastle’s Animal Care and Ethics Committee (ACEC). Specific pathogen-free adult female (6-week-old) C57BL/6 mice were obtained from the animal services unit and maintained according to the recommendations prescribed by the ACEC. Mice were housed under a controlled lighting regime (16L:8D) at 21–22°C and supplied with food and water ad libitum.
Extracted molecule total RNA
Extraction protocol Total RNA (approximately 3 µg) was isolated from adult ovaries using a QIAGEN RNeasy Mini Kit (Hilden, Germany) in accordance with the manufacturer’s recommendations.
Label biotin
Label protocol Biotinylated cRNA were prepared with Ambion's Illumina RNA Amplification kit for Illumina arrays
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Data processing The data were normalised using quantile normalisation using BioConductor's lumi package in R statistical software
Submission date Dec 12, 2012
Last update date Dec 13, 2012
Contact name Alexander Peter Sobinoff
Organization name University of Newcastle Australia
Department Science and IT
Lab Reproductive Science Group
Street address University Drive
City Newcastle
State/province NSW
ZIP/Postal code 2308
Country Australia
Platform ID GPL6885
Series (1)
GSE42889 Expression data from adult mouse ovaries exposed to cigarette smoke in vivo

Data table header descriptions
VALUE Quantile normalized signal intensity

Data table
ILMN_1250052 7.885570094
ILMN_3122480 7.721993764
ILMN_2599935 9.168300388
ILMN_2675543 7.722811006
ILMN_2686883 7.874936355
ILMN_2751818 7.728933616
ILMN_2728634 7.796157064
ILMN_3040515 7.744656719
ILMN_2711608 7.757227998
ILMN_1232875 7.808845324
ILMN_1258507 7.662733171
ILMN_2746142 7.711153138
ILMN_1252690 7.747680444
ILMN_2655499 7.722811006
ILMN_1252870 7.735788313
ILMN_1248179 7.674872947
ILMN_2649955 7.971638606
ILMN_2628708 8.215504753
ILMN_3024781 9.259731494
ILMN_2705628 8.637447013

Total number of rows: 25697

Table truncated, full table size 624 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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