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Sample GSM684881 Query DataSets for GSM684881
Status Public on Feb 28, 2014
Title cont_OO11
Sample type RNA
 
Source name mouse, liver (control) (week 18)
Organism Mus musculus
Characteristics tissue: liver
treatment: vehicle
strain: A/J
Treatment protocol Animals received humane care according to the criteria outlined in the “Guide for the Care and Use of Laboratory Animals” of the National Academy of Sciences. All animals were maintained in accordance with the institutional guidelines of the Massachusetts General Hospital Subcommittee on Research Animal Care. Strain A/J male mice (Jackson Laboratory, Bar Harbor, ME) were treated three times a week for 18 weeks with either 0.1cc of a 40 percent solution of CCl4 (Sigma) in olive oil or with vehicle control by oral gavage. Mice were sacrificed at 19 weeks after a one-week washout to eliminate acute effects of CCl4. The liver was sectioned and fixed in phosphate-buffered 10% formaldehyde for histological analysis. The remaining portions of the liver were collected in RNase-free tubes and snap-frozen in liquid nitrogen. Frozen tissues were stored at -80°C until use.
Extracted molecule total RNA
Extraction protocol Using frozen non-tumor liver tissues, total RNA was extracted using TRIzol (Invitrogen).
Label Cy5
Label protocol Refer to the Illumina beadarray Assay System Manual
 
Hybridization protocol Refer to the Illumina beadarray Assay System Manual
Scan protocol Refer to the Illumina beadarray Assay System Manual
Data processing For each probe, replicated mesurements (beads) were averaged after removing outliers. Data were were then normalized using the cubic spline algorithm.
 
Submission date Mar 02, 2011
Last update date Feb 28, 2014
Contact name Yujin Hoshida
E-mail(s) Yujin.Hoshida@UTSouthwestern.edu
Organization name University of Texas Southwestern Medical Center
Street address 5323 Harry Hines Blvd
City Dallas
State/province TX
ZIP/Postal code 75390
Country USA
 
Platform ID GPL6885
Series (2)
GSE27640 Gene expression profile of liver tissue in carbon tetrachloride (CCl4)-treated mouse treated with erlotinib
GSE27641 EGFR inhibition prevents liver cirrhosis and hepatocellular carcinoma

Data table header descriptions
ID_REF
VALUE Normalized signal intensities by GenePattern Illumina Normalizer module

Data table
ID_REF VALUE
ILMN_2896528 612.1748346
ILMN_2721178 295.8278146
ILMN_3033922 367.1696527
ILMN_3092673 1202.746091
ILMN_2816356 114.9495115
ILMN_2808939 429.3662367
ILMN_2634564 179.9443058
ILMN_2737647 110.2562446
ILMN_2734484 114.9495115
ILMN_2952292 116.9133774
ILMN_2699078 115.5903563
ILMN_1213681 193.6798832
ILMN_2735413 292.0737965
ILMN_2735415 305.006501
ILMN_2891688 123.7831239
ILMN_2637698 148.0225157
ILMN_2674228 166.6129529
ILMN_2601546 110.2562446
ILMN_1230831 110.9655541
ILMN_2848071 397.4026292

Total number of rows: 25697

Table truncated, full table size 625 Kbytes.




Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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