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Sample GSM684882 Query DataSets for GSM684882
Status Public on Feb 28, 2014
Title cont_OO12
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
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
VALUE Normalized signal intensities by GenePattern Illumina Normalizer module

Data table
ILMN_2896528 608.2024045
ILMN_2721178 257.5457688
ILMN_3033922 347.3475879
ILMN_3092673 1227.788353
ILMN_2816356 112.2147029
ILMN_2808939 434.5566291
ILMN_2634564 189.4311059
ILMN_2737647 109.1667151
ILMN_2734484 115.7916395
ILMN_2952292 127.8165747
ILMN_2699078 112.9475284
ILMN_1213681 217.7026776
ILMN_2735413 251.6446119
ILMN_2735415 298.7523594
ILMN_2891688 135.289001
ILMN_2637698 136.6921723
ILMN_2674228 165.4317311
ILMN_2601546 111.4677872
ILMN_1230831 111.4677872
ILMN_2848071 352.5521588

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

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