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Sample GSM628961 Query DataSets for GSM628961
Status Public on Nov 09, 2011
Title WT_3w-3
Sample type RNA
 
Source name Wildtype, 3w
Organism Mus musculus
Characteristics strain/background: C57/129
genotype: wildtype
gender: female
tissue: liver
treatment: CCl4
time: 3 weeks
Treatment protocol 8- and 9-week-old female homozygote and control animals (C57/129) were injected i.p. with CCl4 (1ul/g) in mineral oil (Sigma) twice weekly for a period of 4 weeks. Liver samples were collected at various time-points after fibrosis induction using CCL4 ranging from 0 weeks to 3 weeks. Tissue samples were divided into two parts; one was fixed in 10% formalin for histological evaluation and the other was used for RNA analysis.
Growth protocol All experiments were conducted according to the National Institutes of Health (NIH) guidelines for animal care and following a study protocol approved by the National Cancer Institute (NCI) Animal Care and Use Committee. Mice had free access to food and water.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with the Qiagen Rneasy Kit. Quality control and measurement were performed using NanoDrop and the Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion Totalprep RNA Amplification kit for Illumina arrays.
 
Hybridization protocol Standard Illumina hybridization protocol.
Scan protocol Standard Illumina scanning protocol.
Description Replicate 3 of 4.
Data processing Data was processed by using Gene Expression Module v 1.1.1 in Genome Studio V2009.1 from illumina, Inc. The background noise was subtracted and quantile normalization was applied.
 
Submission date Nov 23, 2010
Last update date Nov 09, 2011
Contact name Daekwan Seo
E-mail(s) daekwan_seo@nih.gov
Phone 301-496-5688
Fax 301-496-0734
Organization name NIH
Department NCI
Lab LEC
Street address 37 Convent Dr. Rm 4140
City Bethesda
State/province MD
ZIP/Postal code 20878
Country USA
 
Platform ID GPL6885
Series (1)
GSE25583 Loss of c-Met Accelerates Development of Liver Fibrosis in Response to CCl4 Exposure through Deregulation of Multiple Molecular Pathways

Data table header descriptions
ID_REF
VALUE Quantile-normalized signal without background noise
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 615.9266 0
ILMN_2721178 84.56817 0
ILMN_3033922 57.09715 0
ILMN_3092673 2104.654 0
ILMN_2816356 3.833379 0.2656642
ILMN_2808939 717.4429 0
ILMN_2634564 252.1762 0
ILMN_2737647 -7.307354 0.9385965
ILMN_2734484 80.73833 0
ILMN_2952292 80.76363 0
ILMN_2699078 -2.200874 0.6516291
ILMN_1213681 90.47811 0
ILMN_2735413 47.6808 0
ILMN_2735415 55.49884 0
ILMN_2891688 226.4373 0
ILMN_2637698 320.5347 0
ILMN_2674228 27.36275 0.001253133
ILMN_2601546 1.183659 0.4122807
ILMN_1230831 -5.760634 0.8784461
ILMN_2848071 169.9583 0

Total number of rows: 25697

Table truncated, full table size 752 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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